Tandem Repeats Finder Program written by:
Gary Benson
Program in Bioinformatics
Boston University
Version 4.09
Sequence: D12
Parameters: 2 7 7 80 10 50 1000
Pmatch=0.80,Pindel=0.10
tuple sizes 0,4,5,7
tuple distances 0, 29, 159, 1000
Length: 63843421
ACGTcount: A:0.32, C:0.16, G:0.16, T:0.32
Warning! 1690000 characters in sequence are not A, C, G, or T
File 192 of 214
Found at i:56191696 original size:21 final size:21
Alignment explanation
Indices: 56191667--56191709 Score: 59
Period size: 21 Copynumber: 2.0 Consensus size: 21
56191657 ATATCTCTGT
*
56191667 TGGTCTAATCTTACATTACGG
1 TGGTCTAATCTTACAATACGG
* *
56191688 TGGTTTAATCTTATAATACGG
1 TGGTCTAATCTTACAATACGG
56191709 T
1 T
56191710 TTGTAATATT
Statistics
Matches: 19, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.26, C:0.14, G:0.19, T:0.42
Consensus pattern (21 bp):
TGGTCTAATCTTACAATACGG
Found at i:56195103 original size:3 final size:3
Alignment explanation
Indices: 56195089--56195130 Score: 66
Period size: 3 Copynumber: 14.0 Consensus size: 3
56195079 TATTTTAATG
* *
56195089 TTA TTG TTA TTA TTA TTA TTA TTA TCA TTA TTA TTA TTA TTA
1 TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA TTA
56195131 GTTTTTTTTT
Statistics
Matches: 35, Mismatches: 4, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
3 35 1.00
ACGTcount: A:0.31, C:0.02, G:0.02, T:0.64
Consensus pattern (3 bp):
TTA
Found at i:56195344 original size:16 final size:16
Alignment explanation
Indices: 56195299--56195344 Score: 51
Period size: 16 Copynumber: 2.9 Consensus size: 16
56195289 AACGTATATA
56195299 TATACACATAT-TTTT
1 TATACACATATATTTT
**
56195314 TATATTC-TATAATTTT
1 TATACACATAT-ATTTT
56195330 TATACACATATATTT
1 TATACACATATATTT
56195345 GCACATCTAT
Statistics
Matches: 24, Mismatches: 4, Indels: 5
0.73 0.12 0.15
Matches are distributed among these distances:
14 3 0.12
15 5 0.21
16 13 0.54
17 3 0.12
ACGTcount: A:0.35, C:0.11, G:0.00, T:0.54
Consensus pattern (16 bp):
TATACACATATATTTT
Found at i:56201507 original size:11 final size:11
Alignment explanation
Indices: 56201493--56201605 Score: 73
Period size: 11 Copynumber: 10.9 Consensus size: 11
56201483 TTTTTTTAAA
56201493 TTTTAAAATAT
1 TTTTAAAATAT
56201504 TTTTAAAATACT
1 TTTTAAAATA-T
**
56201516 TTTTTTAAT-T
1 TTTTAAAATAT
**
56201526 TTAAAAAATAT
1 TTTTAAAATAT
56201537 TTTTAAAATACT
1 TTTTAAAATA-T
**
56201549 TTTTTTAAT-T
1 TTTTAAAATAT
* *
56201559 TTTT---TTAA
1 TTTTAAAATAT
56201567 TTTTAAAATAT
1 TTTTAAAATAT
56201578 TTTT-AAA-A-
1 TTTTAAAATAT
56201586 TTTTAAAA-AT
1 TTTTAAAATAT
56201596 TTTTAAAATA
1 TTTTAAAATA
56201606 AAAATGGGCC
Statistics
Matches: 78, Mismatches: 14, Indels: 20
0.70 0.12 0.18
Matches are distributed among these distances:
7 1 0.01
8 8 0.10
9 5 0.06
10 22 0.28
11 26 0.33
12 16 0.21
ACGTcount: A:0.42, C:0.02, G:0.00, T:0.57
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56201552 original size:32 final size:31
Alignment explanation
Indices: 56201483--56201605 Score: 144
Period size: 33 Copynumber: 4.0 Consensus size: 31
56201473 CTTTTTTAAT
56201483 TTTTTTTAAATTTTAAAATATTTTTAAAATAC
1 TTTTTTT-AATTTTAAAATATTTTTAAAATAC
56201515 TTTTTTTAATTTTAAAAAATATTTTTAAAATAC
1 TTTTTTTAATTTT--AAAATATTTTTAAAATAC
*** *
56201548 TTTTTTTAATTTT-TTTTAATTTTAAAATA-
1 TTTTTTTAATTTTAAAATATTTTTAAAATAC
**
56201577 TTTTTAAAATTTTAAAA-ATTTTTAAAATA
1 TTTTTTTAATTTTAAAATATTTTTAAAATA
56201606 AAAATGGGCC
Statistics
Matches: 78, Mismatches: 10, Indels: 9
0.80 0.10 0.09
Matches are distributed among these distances:
29 22 0.28
30 12 0.15
31 6 0.08
32 7 0.09
33 31 0.40
ACGTcount: A:0.41, C:0.02, G:0.00, T:0.58
Consensus pattern (31 bp):
TTTTTTTAATTTTAAAATATTTTTAAAATAC
Found at i:56201575 original size:74 final size:71
Alignment explanation
Indices: 56201444--56201586 Score: 234
Period size: 74 Copynumber: 2.0 Consensus size: 71
56201434 AATATATTTA
*
56201444 TTTTTTTAATTTTAAAATATTTTTACATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTTA
1 TTTTTTTAATTTTAAAATATTTTTAAATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTTA
56201509 AAATAC
66 AAATAC
56201515 TTTTTTTAATTTTAAAAAATATTTTTAAAATACTTTTTTTAATTTTTTTT-AATTTTAAAATATT
1 TTTTTTTAATTTT--AAAATATTTTT-AAATAC-TTTTTTAATTTTTTTTAAATTTTAAAATATT
56201579 TTTAAAAT
62 TTTAAAAT
56201587 TTTAAAAATT
Statistics
Matches: 67, Mismatches: 1, Indels: 5
0.92 0.01 0.07
Matches are distributed among these distances:
71 13 0.19
73 11 0.16
74 27 0.40
75 16 0.24
ACGTcount: A:0.36, C:0.03, G:0.00, T:0.61
Consensus pattern (71 bp):
TTTTTTTAATTTTAAAATATTTTTAAATACTTTTTTAATTTTTTTTAAATTTTAAAATATTTTTA
AAATAC
Found at i:56201580 original size:18 final size:18
Alignment explanation
Indices: 56201565--56201604 Score: 71
Period size: 18 Copynumber: 2.2 Consensus size: 18
56201555 AATTTTTTTT
56201565 AATTTTAAAATATTTTTAA
1 AATTTTAAAA-ATTTTTAA
56201584 AATTTTAAAAATTTTTAA
1 AATTTTAAAAATTTTTAA
56201602 AAT
1 AAT
56201605 AAAAATGGGC
Statistics
Matches: 21, Mismatches: 0, Indels: 1
0.95 0.00 0.05
Matches are distributed among these distances:
18 11 0.52
19 10 0.48
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (18 bp):
AATTTTAAAAATTTTTAA
Found at i:56201588 original size:9 final size:9
Alignment explanation
Indices: 56201565--56201604 Score: 53
Period size: 9 Copynumber: 4.3 Consensus size: 9
56201555 AATTTTTTTT
56201565 AATTTTAAA
1 AATTTTAAA
*
56201574 ATATTTTTAA
1 A-ATTTTAAA
56201584 AATTTTAAA
1 AATTTTAAA
*
56201593 AATTTTTAA
1 AATTTTAAA
56201602 AAT
1 AAT
56201605 AAAAATGGGC
Statistics
Matches: 27, Mismatches: 3, Indels: 2
0.84 0.09 0.06
Matches are distributed among these distances:
9 19 0.70
10 8 0.30
ACGTcount: A:0.50, C:0.00, G:0.00, T:0.50
Consensus pattern (9 bp):
AATTTTAAA
Found at i:56202925 original size:24 final size:25
Alignment explanation
Indices: 56202884--56202934 Score: 59
Period size: 24 Copynumber: 2.0 Consensus size: 25
56202874 TAATTACCTG
* * *
56202884 AAAAGAAGTAATG-TTTTTATATTA
1 AAAAAAAGTAAGGATTTTAATATTA
56202908 AAAAAAAGTAAGGATTTTGAATATTA
1 AAAAAAAGTAAGGATTTT-AATATTA
56202934 A
1 A
56202935 CTTTATTATA
Statistics
Matches: 22, Mismatches: 3, Indels: 2
0.81 0.11 0.07
Matches are distributed among these distances:
24 11 0.50
25 4 0.18
26 7 0.32
ACGTcount: A:0.51, C:0.00, G:0.14, T:0.35
Consensus pattern (25 bp):
AAAAAAAGTAAGGATTTTAATATTA
Found at i:56205547 original size:15 final size:14
Alignment explanation
Indices: 56205522--56205556 Score: 52
Period size: 15 Copynumber: 2.4 Consensus size: 14
56205512 ATTTCTTCTT
*
56205522 ATATTTTACAGTAG
1 ATATTTCACAGTAG
56205536 ATTATTTCACAGTAG
1 A-TATTTCACAGTAG
56205551 ATATTT
1 ATATTT
56205557 TTTGATCATA
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
14 6 0.32
15 13 0.68
ACGTcount: A:0.34, C:0.09, G:0.11, T:0.46
Consensus pattern (14 bp):
ATATTTCACAGTAG
Found at i:56209196 original size:29 final size:29
Alignment explanation
Indices: 56209149--56209205 Score: 87
Period size: 29 Copynumber: 2.0 Consensus size: 29
56209139 TGATTGATAG
* *
56209149 TTCAGCTCATCAAAGGGAGACTGAAACCT
1 TTCAGCTCATCAAAAGGAGACTAAAACCT
*
56209178 TTCAGCTCATTAAAAGGAGACTAAAACC
1 TTCAGCTCATCAAAAGGAGACTAAAACC
56209206 ACAAGACTCA
Statistics
Matches: 25, Mismatches: 3, Indels: 0
0.89 0.11 0.00
Matches are distributed among these distances:
29 25 1.00
ACGTcount: A:0.39, C:0.23, G:0.18, T:0.21
Consensus pattern (29 bp):
TTCAGCTCATCAAAAGGAGACTAAAACCT
Found at i:56211602 original size:15 final size:15
Alignment explanation
Indices: 56211582--56211611 Score: 60
Period size: 15 Copynumber: 2.0 Consensus size: 15
56211572 CAAACATATT
56211582 ACTGGATCATTGGTA
1 ACTGGATCATTGGTA
56211597 ACTGGATCATTGGTA
1 ACTGGATCATTGGTA
56211612 CTTTATTGTC
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
15 15 1.00
ACGTcount: A:0.27, C:0.13, G:0.27, T:0.33
Consensus pattern (15 bp):
ACTGGATCATTGGTA
Found at i:56214980 original size:16 final size:17
Alignment explanation
Indices: 56214959--56214993 Score: 54
Period size: 17 Copynumber: 2.1 Consensus size: 17
56214949 GGAAATATTG
56214959 ATCA-TTTCAATATTTT
1 ATCATTTTCAATATTTT
*
56214975 ATCATTTTGAATATTTT
1 ATCATTTTCAATATTTT
56214992 AT
1 AT
56214994 GTTTTATAGA
Statistics
Matches: 17, Mismatches: 1, Indels: 1
0.89 0.05 0.05
Matches are distributed among these distances:
16 4 0.24
17 13 0.76
ACGTcount: A:0.31, C:0.09, G:0.03, T:0.57
Consensus pattern (17 bp):
ATCATTTTCAATATTTT
Found at i:56215906 original size:19 final size:20
Alignment explanation
Indices: 56215869--56215907 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56215859 AAGTTGTAAC
*
56215869 AAAAATTTATATTATAAATA
1 AAAAAATTATATTATAAATA
56215889 AAAAAATTATATTA-AAATA
1 AAAAAATTATATTATAAATA
56215908 TTTAGATGAT
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
19 5 0.28
20 13 0.72
ACGTcount: A:0.64, C:0.00, G:0.00, T:0.36
Consensus pattern (20 bp):
AAAAAATTATATTATAAATA
Found at i:56216261 original size:18 final size:18
Alignment explanation
Indices: 56216236--56216305 Score: 61
Period size: 18 Copynumber: 3.6 Consensus size: 18
56216226 ATTATATTGA
56216236 TAAT-TTTTTATAGTAAT
1 TAATATTTTTATAGTAAT
*
56216253 TAATATTTTTAAAATTGTGTAAAT
1 TAATATTTTT---A-T-AGT-AAT
*
56216277 TAATATTTTTATAATAAT
1 TAATATTTTTATAGTAAT
56216295 TAATATTTTTA
1 TAATATTTTTA
56216306 AATTATGTAA
Statistics
Matches: 43, Mismatches: 3, Indels: 13
0.73 0.05 0.22
Matches are distributed among these distances:
17 4 0.09
18 19 0.44
19 1 0.02
20 1 0.02
21 2 0.05
22 1 0.02
23 2 0.05
24 13 0.30
ACGTcount: A:0.40, C:0.00, G:0.04, T:0.56
Consensus pattern (18 bp):
TAATATTTTTATAGTAAT
Found at i:56216289 original size:42 final size:42
Alignment explanation
Indices: 56216236--56216347 Score: 147
Period size: 41 Copynumber: 2.7 Consensus size: 42
56216226 ATTATATTGA
*
56216236 TAAT-TTTTTATAGTAATTAATATTTTTAAAATTGTGTAAAT
1 TAATATTTTTATAGTAATTAATATTTTTAAAATTATGTAAAT
*
56216277 TAATATTTTTATAATAATTAATATTTTT-AAATTATGTAAAT
1 TAATATTTTTATAGTAATTAATATTTTTAAAATTATGTAAAT
* * * * *
56216318 AAACATTTTTATAGCATTTAATTTTTTTAA
1 TAATATTTTTATAGTAATTAATATTTTTAA
56216348 TTTAAATTAT
Statistics
Matches: 61, Mismatches: 8, Indels: 3
0.85 0.11 0.04
Matches are distributed among these distances:
41 38 0.62
42 23 0.38
ACGTcount: A:0.40, C:0.02, G:0.04, T:0.54
Consensus pattern (42 bp):
TAATATTTTTATAGTAATTAATATTTTTAAAATTATGTAAAT
Found at i:56216425 original size:27 final size:27
Alignment explanation
Indices: 56216392--56216444 Score: 106
Period size: 27 Copynumber: 2.0 Consensus size: 27
56216382 ACATTATTCA
56216392 TGTAATTTTAATATAATTACACTTTGT
1 TGTAATTTTAATATAATTACACTTTGT
56216419 TGTAATTTTAATATAATTACACTTTG
1 TGTAATTTTAATATAATTACACTTTG
56216445 CCAGTCAAAT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
27 26 1.00
ACGTcount: A:0.34, C:0.08, G:0.08, T:0.51
Consensus pattern (27 bp):
TGTAATTTTAATATAATTACACTTTGT
Found at i:56242475 original size:17 final size:17
Alignment explanation
Indices: 56242442--56242475 Score: 50
Period size: 17 Copynumber: 2.0 Consensus size: 17
56242432 TTTTAATTTT
**
56242442 ATATAATTTTTTTATAA
1 ATATAATTTTTACATAA
56242459 ATATAATTTTTACATAA
1 ATATAATTTTTACATAA
56242476 TTTATTTTAA
Statistics
Matches: 15, Mismatches: 2, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
17 15 1.00
ACGTcount: A:0.44, C:0.03, G:0.00, T:0.53
Consensus pattern (17 bp):
ATATAATTTTTACATAA
Found at i:56243285 original size:20 final size:19
Alignment explanation
Indices: 56243247--56243302 Score: 69
Period size: 20 Copynumber: 2.9 Consensus size: 19
56243237 TCTTTCAATA
*
56243247 AAAAT-TTTACAAAAATTT
1 AAAATATTTATAAAAATTT
* *
56243265 AAAATAATTTTTAAAATTTT
1 AAAAT-ATTTATAAAAATTT
56243285 AAAATATTTATAAAAATT
1 AAAATATTTATAAAAATT
56243303 CCAAATTTTA
Statistics
Matches: 31, Mismatches: 5, Indels: 3
0.79 0.13 0.08
Matches are distributed among these distances:
18 5 0.16
19 11 0.35
20 15 0.48
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (19 bp):
AAAATATTTATAAAAATTT
Found at i:56243346 original size:21 final size:23
Alignment explanation
Indices: 56243321--56243366 Score: 62
Period size: 21 Copynumber: 2.1 Consensus size: 23
56243311 TATCTTTTTT
56243321 AAAAA-TTATAAAAT-T-TAAAGA
1 AAAAAGTTA-AAAATATATAAAGA
56243342 AAAAAGTTAAAAATATATAAAGA
1 AAAAAGTTAAAAATATATAAAGA
56243365 AA
1 AA
56243367 GTTAAAATTT
Statistics
Matches: 22, Mismatches: 0, Indels: 4
0.85 0.00 0.15
Matches are distributed among these distances:
21 10 0.45
22 4 0.18
23 8 0.36
ACGTcount: A:0.70, C:0.00, G:0.07, T:0.24
Consensus pattern (23 bp):
AAAAAGTTAAAAATATATAAAGA
Found at i:56243352 original size:20 final size:19
Alignment explanation
Indices: 56243329--56243376 Score: 51
Period size: 20 Copynumber: 2.4 Consensus size: 19
56243319 TTAAAAATTA
56243329 TAAAATTTAAAGAAAAAAGT
1 TAAAATTTAAA-AAAAAAGT
* * *
56243349 TAAAAATATATAAAGAAAGT
1 T-AAAATTTAAAAAAAAAGT
56243369 TAAAATTT
1 TAAAATTT
56243377 TTTAAAAAAA
Statistics
Matches: 23, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
19 6 0.26
20 9 0.39
21 8 0.35
ACGTcount: A:0.62, C:0.00, G:0.08, T:0.29
Consensus pattern (19 bp):
TAAAATTTAAAAAAAAAGT
Found at i:56249815 original size:17 final size:17
Alignment explanation
Indices: 56249780--56249817 Score: 51
Period size: 17 Copynumber: 2.2 Consensus size: 17
56249770 ATGTTATTAT
*
56249780 TATTTTATTTAATCTAA
1 TATTTTATTTAATCAAA
56249797 TATTTGTATTTAAT-AAA
1 TATTT-TATTTAATCAAA
56249814 TATT
1 TATT
56249818 ATATATTTTG
Statistics
Matches: 19, Mismatches: 1, Indels: 2
0.86 0.05 0.09
Matches are distributed among these distances:
17 11 0.58
18 8 0.42
ACGTcount: A:0.37, C:0.03, G:0.03, T:0.58
Consensus pattern (17 bp):
TATTTTATTTAATCAAA
Found at i:56249824 original size:18 final size:18
Alignment explanation
Indices: 56249780--56249825 Score: 51
Period size: 18 Copynumber: 2.6 Consensus size: 18
56249770 ATGTTATTAT
*
56249780 TATTT-TATTTAATCTAA
1 TATTTATATTTAATCAAA
*
56249797 TATTTGTATTTAAT-AAA
1 TATTTATATTTAATCAAA
56249814 TATTATATATTT
1 TATT-TATATTT
56249826 TGGTATTTAA
Statistics
Matches: 25, Mismatches: 2, Indels: 3
0.83 0.07 0.10
Matches are distributed among these distances:
17 11 0.44
18 14 0.56
ACGTcount: A:0.37, C:0.02, G:0.02, T:0.59
Consensus pattern (18 bp):
TATTTATATTTAATCAAA
Found at i:56256099 original size:41 final size:41
Alignment explanation
Indices: 56256041--56256279 Score: 290
Period size: 41 Copynumber: 5.8 Consensus size: 41
56256031 TTAAACAGAT
** * * *
56256041 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
56256083 -CACCGGCACTT-AGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
56256123 TCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
56256164 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
*
56256205 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
56256244 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTG
56256280 TATTATATTC
Statistics
Matches: 179, Mismatches: 12, Indels: 13
0.88 0.06 0.06
Matches are distributed among these distances:
39 2 0.01
40 8 0.04
41 165 0.92
42 4 0.02
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (41 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:56256279 original size:123 final size:122
Alignment explanation
Indices: 56256041--56256269 Score: 320
Period size: 123 Copynumber: 1.9 Consensus size: 122
56256031 TTAAACAGAT
** * *
56256041 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTGATTCAGTACACCGGCACTTAGCCTGCTAGAC
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGCCTGAAT-AGTACACCGGCACTTAGCCTGCTAGAC
*
56256106 ATATAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
65 ATAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
* *
56256164 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAA-ATGTATCACCGGCATTTAGCCTGCTAGA
1 TCACCGGCATTAAGCCTGCTAGACTTAAAGCCTGAATA-GTA-CACCGGCACTTAGCCTGCTAGA
*
56256228 CTTAAAGTCTG-AAT-TACTTCACCGGCATTAAGCCTGCTAGAC
64 CATAAAGTCTGAAATGTA--TCACCGGCATTAAGCCTGCTAGAC
56256270 GTAACGTCTG
Statistics
Matches: 94, Mismatches: 8, Indels: 8
0.85 0.07 0.07
Matches are distributed among these distances:
121 3 0.03
122 6 0.06
123 85 0.90
ACGTcount: A:0.28, C:0.25, G:0.20, T:0.28
Consensus pattern (122 bp):
TCACCGGCATTAAGCCTGCTAGACTTAAAGCCTGAATAGTACACCGGCACTTAGCCTGCTAGACA
TAAAGTCTGAAATGTATCACCGGCATTAAGCCTGCTAGACATATAGTCTGAAATGTA
Found at i:56263527 original size:103 final size:104
Alignment explanation
Indices: 56263348--56263612 Score: 406
Period size: 103 Copynumber: 2.6 Consensus size: 104
56263338 AACCGTTATT
* * * *
56263348 GGTGGATCTCGCACTTAGCACCACCACTTAATCGGGGAATCAGCACTTAGCAACCCCTTGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
** *
56263413 ATCAACACATAGCAACCCCCTTT-TTATTTCAGAGATAC
66 ATCAACACATAGCAACCCCCTTTCACATTTCAAAGATAC
* *
56263451 GGTGGATATCACACTTAGCACCACCAATGAACCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
*
56263516 ATCAGCACATAGCAACCCCCTTTCACATTTCAAAGATAC
66 ATCAACACATAGCAACCCCCTTTCACATTTCAAAGATAC
* **
56263555 GGTGGATATCGCACATAGCACCACCAATGAATCGGGGAATCAGCACACAGCAACCCCT
1 GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCT
56263613 TTATGTACAA
Statistics
Matches: 146, Mismatches: 15, Indels: 1
0.90 0.09 0.01
Matches are distributed among these distances:
103 81 0.55
104 65 0.45
ACGTcount: A:0.31, C:0.30, G:0.20, T:0.19
Consensus pattern (104 bp):
GGTGGATATCGCACTTAGCACCACCAATGAATCGGGGAATCAGCACTTAGCAACCCCTCGGGGGA
ATCAACACATAGCAACCCCCTTTCACATTTCAAAGATAC
Found at i:56266425 original size:41 final size:40
Alignment explanation
Indices: 56266367--56266646 Score: 334
Period size: 41 Copynumber: 6.8 Consensus size: 40
56266357 TTAAACAGAT
* * * *
56266367 TCACCGGCATTTTGCCTGCTAGGCTTAAAGCCTG-ATTCAGTA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAAT--GTA
* *
56266409 -CACCGGCACTTAGCCTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAATGTA
* * *
56266449 TCACCGGCATTAAGCTTGCTAGACATATAGTCTGAAATGTA
1 TCACCGGCATT-AGCCTGCTAGACTTAAAGTCTGAAATGTA
56266490 TCACCGGCATTAAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCATT-AGCCTGCTAGACTTAAAGTCTGAAATGTA
56266531 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTGAAATGTA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAATGTA
56266572 TCACCGGCATTTAGCCTGCTAGACTTAAAGTCTG-AAT-TA
1 TCACCGGCA-TTAGCCTGCTAGACTTAAAGTCTGAAATGTA
* *
56266611 CTTCACCGGCATTAAGCCTGCTAGACGTAACGTCTG
1 --TCACCGGCATT-AGCCTGCTAGACTTAAAGTCTG
56266647 TATTATATTC
Statistics
Matches: 218, Mismatches: 13, Indels: 15
0.89 0.05 0.06
Matches are distributed among these distances:
39 2 0.01
40 10 0.05
41 202 0.93
42 4 0.02
ACGTcount: A:0.28, C:0.24, G:0.20, T:0.28
Consensus pattern (40 bp):
TCACCGGCATTAGCCTGCTAGACTTAAAGTCTGAAATGTA
Found at i:56269813 original size:23 final size:23
Alignment explanation
Indices: 56269763--56269807 Score: 72
Period size: 23 Copynumber: 2.0 Consensus size: 23
56269753 GCGCTTAAGG
* *
56269763 TGTAATATCCCGAAAATTACTAC
1 TGTAATACCCCAAAAATTACTAC
56269786 TGTAATACCCCAAAAATTACTA
1 TGTAATACCCCAAAAATTACTA
56269808 TAGTAAGAAA
Statistics
Matches: 20, Mismatches: 2, Indels: 0
0.91 0.09 0.00
Matches are distributed among these distances:
23 20 1.00
ACGTcount: A:0.42, C:0.22, G:0.07, T:0.29
Consensus pattern (23 bp):
TGTAATACCCCAAAAATTACTAC
Found at i:56272643 original size:3 final size:3
Alignment explanation
Indices: 56272635--56272694 Score: 120
Period size: 3 Copynumber: 20.0 Consensus size: 3
56272625 TAATAGCTCC
56272635 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
1 ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT ATT
56272683 ATT ATT ATT ATT
1 ATT ATT ATT ATT
56272695 CCTATATATA
Statistics
Matches: 57, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 57 1.00
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (3 bp):
ATT
Found at i:56279869 original size:3 final size:3
Alignment explanation
Indices: 56279861--56279886 Score: 52
Period size: 3 Copynumber: 8.7 Consensus size: 3
56279851 AAAAAATATA
56279861 AAT AAT AAT AAT AAT AAT AAT AAT AA
1 AAT AAT AAT AAT AAT AAT AAT AAT AA
56279887 ATATCCACTA
Statistics
Matches: 23, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 23 1.00
ACGTcount: A:0.69, C:0.00, G:0.00, T:0.31
Consensus pattern (3 bp):
AAT
Found at i:56282467 original size:13 final size:13
Alignment explanation
Indices: 56282449--56282488 Score: 53
Period size: 13 Copynumber: 3.1 Consensus size: 13
56282439 ACTTCTTTAT
*
56282449 TGCTTTTGAGAAG
1 TGCTTTTGAGAAA
*
56282462 TGCTTTAGAGAAA
1 TGCTTTTGAGAAA
*
56282475 TACTTTTGAGAAA
1 TGCTTTTGAGAAA
56282488 T
1 T
56282489 ATGAGTGTTT
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
13 23 1.00
ACGTcount: A:0.33, C:0.07, G:0.23, T:0.38
Consensus pattern (13 bp):
TGCTTTTGAGAAA
Found at i:56283214 original size:19 final size:20
Alignment explanation
Indices: 56283192--56283238 Score: 60
Period size: 23 Copynumber: 2.2 Consensus size: 20
56283182 AACAATCCAT
56283192 CAATA-TTATCTAAATCATA
1 CAATATTTATCTAAATCATA
56283211 CAATAACATTTATCTAAATCATA
1 CAAT---ATTTATCTAAATCATA
56283234 CAATA
1 CAATA
56283239 ACATTTAAGG
Statistics
Matches: 24, Mismatches: 0, Indels: 7
0.77 0.00 0.23
Matches are distributed among these distances:
19 4 0.17
20 1 0.04
22 1 0.04
23 18 0.75
ACGTcount: A:0.49, C:0.17, G:0.00, T:0.34
Consensus pattern (20 bp):
CAATATTTATCTAAATCATA
Found at i:56283227 original size:23 final size:23
Alignment explanation
Indices: 56283197--56283245 Score: 98
Period size: 23 Copynumber: 2.1 Consensus size: 23
56283187 TCCATCAATA
56283197 TTATCTAAATCATACAATAACAT
1 TTATCTAAATCATACAATAACAT
56283220 TTATCTAAATCATACAATAACAT
1 TTATCTAAATCATACAATAACAT
56283243 TTA
1 TTA
56283246 AGGAGTTCAA
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
23 26 1.00
ACGTcount: A:0.47, C:0.16, G:0.00, T:0.37
Consensus pattern (23 bp):
TTATCTAAATCATACAATAACAT
Found at i:56284584 original size:20 final size:20
Alignment explanation
Indices: 56284559--56284598 Score: 62
Period size: 20 Copynumber: 2.0 Consensus size: 20
56284549 CGTAAAATTA
*
56284559 TTTCTGAAAAATGTTTTACT
1 TTTCTGAAAAATGATTTACT
*
56284579 TTTCTGTAAAATGATTTACT
1 TTTCTGAAAAATGATTTACT
56284599 GGAAAATATT
Statistics
Matches: 18, Mismatches: 2, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
20 18 1.00
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.50
Consensus pattern (20 bp):
TTTCTGAAAAATGATTTACT
Found at i:56284588 original size:34 final size:35
Alignment explanation
Indices: 56284544--56284610 Score: 91
Period size: 34 Copynumber: 1.9 Consensus size: 35
56284534 CAGTAAAATA
* *
56284544 TTTTCCGTAAAATTATTT-CTGAAAAATGTTTTAC
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
* *
56284578 TTTTCTGTAAAATGATTTACTGGAAAATATTTT
1 TTTTCCGTAAAATGATTTACTGAAAAATATTTT
56284611 CTGGTGTTTG
Statistics
Matches: 28, Mismatches: 4, Indels: 1
0.85 0.12 0.03
Matches are distributed among these distances:
34 16 0.57
35 12 0.43
ACGTcount: A:0.33, C:0.09, G:0.10, T:0.48
Consensus pattern (35 bp):
TTTTCCGTAAAATGATTTACTGAAAAATATTTTAC
Found at i:56286801 original size:33 final size:27
Alignment explanation
Indices: 56286759--56286840 Score: 101
Period size: 27 Copynumber: 2.8 Consensus size: 27
56286749 AAAATACGGT
56286759 GGAATCAGCACTTAGCAACCACCAATGATTCGG
1 GGAATCAGCACTTAGCAACC-CC-----TTCGG
*
56286792 GGAATCAGCACTTAGCAACCCCTTGGG
1 GGAATCAGCACTTAGCAACCCCTTCGG
56286819 GGAATCAGCACTTAGCAACCCC
1 GGAATCAGCACTTAGCAACCCC
56286841 CTTTATATTC
Statistics
Matches: 48, Mismatches: 1, Indels: 6
0.87 0.02 0.11
Matches are distributed among these distances:
27 26 0.54
32 2 0.04
33 20 0.42
ACGTcount: A:0.30, C:0.30, G:0.22, T:0.17
Consensus pattern (27 bp):
GGAATCAGCACTTAGCAACCCCTTCGG
Found at i:56286829 original size:102 final size:102
Alignment explanation
Indices: 56286653--56286843 Score: 346
Period size: 102 Copynumber: 1.9 Consensus size: 102
56286643 CAACCGTTAT
* *
56286653 CGGTGGATTCAGCACTTAACAACCACCAGTGATTCGGAGAATCAGCACTTAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAACAACCACCAATGATTCGGAGAATCAGCACTTAGCAACCCCTTGGGG
56286718 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
66 GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
* *
56286755 CGGTGGAATCAGCACTTAGCAACCACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTGGGG
1 CGGTGGAATCAGCACTTAACAACCACCAATGATTCGGAGAATCAGCACTTAGCAACCCCTTGGGG
56286820 GAATCAGCACTTAGCAACCCCCTT
66 GAATCAGCACTTAGCAACCCCCTT
56286844 TATATTCAAT
Statistics
Matches: 85, Mismatches: 4, Indels: 0
0.96 0.04 0.00
Matches are distributed among these distances:
102 85 1.00
ACGTcount: A:0.30, C:0.29, G:0.20, T:0.20
Consensus pattern (102 bp):
CGGTGGAATCAGCACTTAACAACCACCAATGATTCGGAGAATCAGCACTTAGCAACCCCTTGGGG
GAATCAGCACTTAGCAACCCCCTTCACATTTAAAATA
Found at i:56291873 original size:33 final size:33
Alignment explanation
Indices: 56291836--56292191 Score: 192
Period size: 33 Copynumber: 10.5 Consensus size: 33
56291826 ATAGGTGGAT
* *
56291836 TCAGCACTTAGCAACCACCAGTGATTCGGGGAG
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
56291869 TCAGCACTTAGCAACCCCTTTCACATTCAAAGATAT-GGTGGAA
1 TCAGCACTTAGCAA---C---CAC---CAATGAT-TCGG-GGAA
56291912 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
56291945 TCAGCACTTAGCAACCA-C-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * * *
56291972 TCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T--GATTC-GGGGAA
*
56292014 TCAGCACTTAGCAACCAACAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
56292047 TCAGCACTTAGCAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
* * *
56292074 TCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAA
1 TCAGCACTTAGCAA-CCAC--CA-A--T--GATTCGG-GGAA
56292116 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
*
56292149 TCAGCACTTAGCAACC-CC-----TTGGGGGAA
1 TCAGCACTTAGCAACCACCAATGATTCGGGGAA
56292176 TCAGCACTTAGCAACC
1 TCAGCACTTAGCAACC
56292192 CCCTTTATAT
Statistics
Matches: 259, Mismatches: 22, Indels: 90
0.70 0.06 0.24
Matches are distributed among these distances:
27 68 0.26
28 4 0.02
29 1 0.00
31 2 0.01
32 4 0.02
33 77 0.30
34 16 0.06
36 3 0.01
37 3 0.01
38 2 0.01
39 7 0.03
40 1 0.00
41 9 0.03
42 44 0.17
43 18 0.07
ACGTcount: A:0.32, C:0.28, G:0.20, T:0.21
Consensus pattern (33 bp):
TCAGCACTTAGCAACCACCAATGATTCGGGGAA
Found at i:56292039 original size:102 final size:102
Alignment explanation
Indices: 56291863--56292196 Score: 596
Period size: 102 Copynumber: 3.3 Consensus size: 102
56291853 CCAGTGATTC
* * * *
56291863 GGGGAGTCAGCACTTAGCAACCCCTTTCACATTCAAAGATATGGTGGAATCAGCACTTAGCAACC
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAA-ATACGGTGGAATCAGCACTTAGCAACC
*
56291928 ACCAATGATTCGGGGAATCAGCACTTAGCAACCACTTG
65 ACCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
*
56291966 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACAGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
*
56292031 ACAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
56292068 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
1 GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
56292133 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
66 CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
56292170 GGGGAATCAGCACTTAGCAACCCCCTT
1 GGGGAATCAGCACTTAGCAACCCCCTT
56292197 TATATTCAAT
Statistics
Matches: 222, Mismatches: 9, Indels: 1
0.96 0.04 0.00
Matches are distributed among these distances:
102 188 0.85
103 34 0.15
ACGTcount: A:0.31, C:0.28, G:0.20, T:0.21
Consensus pattern (102 bp):
GGGGAATCAGCACTTAGCAACCCCCTTCACATTTAAAATACGGTGGAATCAGCACTTAGCAACCA
CCAATGATTCGGGGAATCAGCACTTAGCAACCCCTTG
Found at i:56294184 original size:22 final size:22
Alignment explanation
Indices: 56294159--56294201 Score: 59
Period size: 22 Copynumber: 2.0 Consensus size: 22
56294149 AAAGAAACTC
* * *
56294159 ACCAGCGGAAGAGGAACAAAGA
1 ACCAGAGGAAAAGAAACAAAGA
56294181 ACCAGAGGAAAAGAAACAAAG
1 ACCAGAGGAAAAGAAACAAAG
56294202 GCTAAGAACT
Statistics
Matches: 18, Mismatches: 3, Indels: 0
0.86 0.14 0.00
Matches are distributed among these distances:
22 18 1.00
ACGTcount: A:0.56, C:0.16, G:0.28, T:0.00
Consensus pattern (22 bp):
ACCAGAGGAAAAGAAACAAAGA
Found at i:56296881 original size:16 final size:16
Alignment explanation
Indices: 56296860--56296927 Score: 109
Period size: 16 Copynumber: 4.2 Consensus size: 16
56296850 TTTGGTTCGC
56296860 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
* **
56296876 TGTATTGGATTAAATA
1 TGTATTGGATTAGAGG
56296892 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56296908 TGTATTGGATTAGAGG
1 TGTATTGGATTAGAGG
56296924 TGTA
1 TGTA
56296928 ATAGCAAATC
Statistics
Matches: 46, Mismatches: 6, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
16 46 1.00
ACGTcount: A:0.28, C:0.00, G:0.32, T:0.40
Consensus pattern (16 bp):
TGTATTGGATTAGAGG
Found at i:56297184 original size:18 final size:17
Alignment explanation
Indices: 56297163--56297197 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56297153 TTATTATTAA
*
56297163 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56297181 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56297198 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56297304 original size:18 final size:17
Alignment explanation
Indices: 56297283--56297317 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56297273 TTATTATTAA
*
56297283 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56297301 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56297318 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56297359 original size:120 final size:120
Alignment explanation
Indices: 56297146--56297888 Score: 1486
Period size: 120 Copynumber: 6.2 Consensus size: 120
56297136 ATCATATTTA
56297146 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56297211 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
56297266 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56297331 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
56297386 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56297451 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
56297506 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56297571 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
56297626 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56297691 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
56297746 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
1 AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
56297811 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
66 TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
56297866 AACATAATTATTATTAAATATAT
1 AACATAATTATTATTAAATATAT
56297889 AACTTGAAAA
Statistics
Matches: 623, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
120 623 1.00
ACGTcount: A:0.48, C:0.05, G:0.02, T:0.44
Consensus pattern (120 bp):
AACATAATTATTATTAAATATATTTTAATTAAAATATATAATTTAATAAAATTCTTAATAATTAA
TATTCTTATATTAATTTACTGAAATCATAATATATGATACTGTAAAATATAAATT
Found at i:56297424 original size:18 final size:17
Alignment explanation
Indices: 56297403--56297437 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56297393 TTATTATTAA
*
56297403 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56297421 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56297438 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56297544 original size:18 final size:17
Alignment explanation
Indices: 56297523--56297557 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56297513 TTATTATTAA
*
56297523 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56297541 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56297558 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56297664 original size:18 final size:17
Alignment explanation
Indices: 56297643--56297677 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56297633 TTATTATTAA
*
56297643 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56297661 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56297678 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56297784 original size:18 final size:17
Alignment explanation
Indices: 56297763--56297797 Score: 52
Period size: 18 Copynumber: 2.0 Consensus size: 17
56297753 TTATTATTAA
*
56297763 ATATATTTTAATTAAAAT
1 ATATAATTTAA-TAAAAT
56297781 ATATAATTTAATAAAAT
1 ATATAATTTAATAAAAT
56297798 TCTTAATAAT
Statistics
Matches: 16, Mismatches: 1, Indels: 1
0.89 0.06 0.06
Matches are distributed among these distances:
17 6 0.38
18 10 0.62
ACGTcount: A:0.54, C:0.00, G:0.00, T:0.46
Consensus pattern (17 bp):
ATATAATTTAATAAAAT
Found at i:56300249 original size:27 final size:27
Alignment explanation
Indices: 56300218--56300395 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56300208 TAAATTGTAC
56300218 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56300245 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56300271 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56300299 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56300327 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56300354 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56300381 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56300396 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56300332 original size:82 final size:81
Alignment explanation
Indices: 56300219--56300374 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56300209 AAATTGTACA
* *
56300219 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56300283 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56300300 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56300365 TGCGAGTTGA
65 TGCGAATTGA
56300375 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56300386 original size:82 final size:81
Alignment explanation
Indices: 56300215--56300395 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56300205 GATTAAATTG
* *
56300215 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56300280 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56300296 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56300360 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56300378 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56300396 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56308300 original size:27 final size:27
Alignment explanation
Indices: 56308269--56308446 Score: 205
Period size: 27 Copynumber: 6.6 Consensus size: 27
56308259 TAAATTGTAC
56308269 AGCACTAAGTGTGCGATTTGACTATGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* ** *
56308296 TGCACTAAGTGTGCGAAATGAATATG-
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56308322 ATGCACTAAGTGTGCGAATTGACCATGC
1 A-GCACTAAGTGTGCGATTTGACTATGT
*
56308350 GGCACTAAGTGTGCGAGTTTGACTATGT
1 AGCACTAAGTGTGCGA-TTTGACTATGT
* *
56308378 AGCACTAAGTGTGCGATTTGATTACGT
1 AGCACTAAGTGTGCGATTTGACTATGT
* * *
56308405 AGCACTAAGTGTGCGAGTTGATTATAT
1 AGCACTAAGTGTGCGATTTGACTATGT
*
56308432 AGCACTGAGTGTGCG
1 AGCACTAAGTGTGCG
56308447 GACTCAATAT
Statistics
Matches: 129, Mismatches: 19, Indels: 6
0.84 0.12 0.04
Matches are distributed among these distances:
27 106 0.82
28 23 0.18
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (27 bp):
AGCACTAAGTGTGCGATTTGACTATGT
Found at i:56308383 original size:82 final size:81
Alignment explanation
Indices: 56308270--56308425 Score: 233
Period size: 82 Copynumber: 1.9 Consensus size: 81
56308260 AAATTGTACA
* *
56308270 GCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATG-ATGCACTAAGTG
1 GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTA-GCACTAAGTG
56308334 TGCGAATTGACCATGCG
65 TGCGAATTGACCATGCG
** *
56308351 GCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACGTAGCACTAAGTG
1 GCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTG
*
56308416 TGCGAGTTGA
65 TGCGAATTGA
56308426 TTATATAGCA
Statistics
Matches: 67, Mismatches: 6, Indels: 3
0.88 0.08 0.04
Matches are distributed among these distances:
81 15 0.22
82 51 0.76
83 1 0.01
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.29
Consensus pattern (81 bp):
GCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGTAGCACTAAGTGT
GCGAATTGACCATGCG
Found at i:56308437 original size:82 final size:81
Alignment explanation
Indices: 56308266--56308446 Score: 229
Period size: 82 Copynumber: 2.2 Consensus size: 81
56308256 GATTAAATTG
* *
56308266 TACAGCACTAAGTGTGCGATTTGACTATGTTGCACTAAGTGTGCGAAATGAATATGATGCACTAA
1 TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
56308331 GTGTGCGAATTGACCA
66 GTGTGCGAATTGACCA
* * ** *
56308347 TGCGGCACTAAGTGTGCGAGTTTGACTATGTAGCACTAAGTGTGCGATTTGATTACG-TAGCACT
1 TACAGCACTAAGTGTGCGA-TTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGAT-GCACT
* **
56308411 AAGTGTGCGAGTTGATTA
64 AAGTGTGCGAATTGACCA
* *
56308429 TATAGCACTGAGTGTGCG
1 TACAGCACTAAGTGTGCG
56308447 GACTCAATAT
Statistics
Matches: 84, Mismatches: 14, Indels: 3
0.83 0.14 0.03
Matches are distributed among these distances:
81 18 0.21
82 66 0.79
ACGTcount: A:0.27, C:0.15, G:0.28, T:0.30
Consensus pattern (81 bp):
TACAGCACTAAGTGTGCGATTTGACTATGTAGCACTAAGTGTGCGAAATGAATACGATGCACTAA
GTGTGCGAATTGACCA
Found at i:56310439 original size:21 final size:21
Alignment explanation
Indices: 56310396--56310451 Score: 85
Period size: 21 Copynumber: 2.6 Consensus size: 21
56310386 AAGCAGATGG
*
56310396 AGCCACTGCAAATAAATTATAT
1 AGCCACTGCAAA-CAATTATAT
*
56310418 AGCCACTGCAAACAATTGTAT
1 AGCCACTGCAAACAATTATAT
56310439 AGCCACTGCAAAC
1 AGCCACTGCAAAC
56310452 GGGGGAAACT
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
21 20 0.62
22 12 0.38
ACGTcount: A:0.41, C:0.25, G:0.12, T:0.21
Consensus pattern (21 bp):
AGCCACTGCAAACAATTATAT
Found at i:56311580 original size:33 final size:33
Alignment explanation
Indices: 56311538--56311673 Score: 149
Period size: 33 Copynumber: 4.3 Consensus size: 33
56311528 AAAAATGGCA
* *
56311538 AGAGGAACAAAACATGGTACAGAAATAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
** *
56311571 AGAGAAACAAAA-A----ACCA-CTATAGAAAAT
1 AGAGAAACAAAACATGGTA-CAGAAACAGAAAAT
*
56311599 AGAGGAACAAAACATGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
* *
56311632 AAAGAAACAAAACACGGTACAGAAACAGAAAAT
1 AGAGAAACAAAACATGGTACAGAAACAGAAAAT
56311665 AGAGAAACA
1 AGAGAAACA
56311674 TAAAGCAGAC
Statistics
Matches: 85, Mismatches: 11, Indels: 14
0.77 0.10 0.13
Matches are distributed among these distances:
28 21 0.25
29 3 0.04
32 3 0.04
33 58 0.68
ACGTcount: A:0.61, C:0.12, G:0.18, T:0.09
Consensus pattern (33 bp):
AGAGAAACAAAACATGGTACAGAAACAGAAAAT
Found at i:56311657 original size:18 final size:17
Alignment explanation
Indices: 56311604--56311658 Score: 53
Period size: 18 Copynumber: 3.2 Consensus size: 17
56311594 AAAATAGAGG
56311604 AACAAAACATGGTACAGA
1 AACAAAACA-GGTACAGA
*
56311622 AACAGAAA-A--TAAAGA
1 AACA-AAACAGGTACAGA
56311637 AACAAAACACGGTACAGA
1 AACAAAACA-GGTACAGA
56311655 AACA
1 AACA
56311659 GAAAATAGAG
Statistics
Matches: 30, Mismatches: 2, Indels: 10
0.71 0.05 0.24
Matches are distributed among these distances:
14 3 0.10
15 10 0.33
18 14 0.47
19 3 0.10
ACGTcount: A:0.62, C:0.16, G:0.15, T:0.07
Consensus pattern (17 bp):
AACAAAACAGGTACAGA
Found at i:56325343 original size:27 final size:27
Alignment explanation
Indices: 56325279--56325347 Score: 93
Period size: 27 Copynumber: 2.6 Consensus size: 27
56325269 AATGGAGGGT
* *
56325279 CTGCCACAGGCGGCACCAATGGTTCCT
1 CTGCCACAGGCGGCACCAATGGTGCCA
* * *
56325306 TTGGCAGAGGCGGCACCAATGGTGCCA
1 CTGCCACAGGCGGCACCAATGGTGCCA
56325333 CTGCCACAGGCGGCA
1 CTGCCACAGGCGGCA
56325348 TCCCCTTTGT
Statistics
Matches: 34, Mismatches: 8, Indels: 0
0.81 0.19 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.20, C:0.33, G:0.32, T:0.14
Consensus pattern (27 bp):
CTGCCACAGGCGGCACCAATGGTGCCA
Found at i:56326609 original size:19 final size:19
Alignment explanation
Indices: 56326585--56326634 Score: 100
Period size: 19 Copynumber: 2.6 Consensus size: 19
56326575 GGAAAAAAAG
56326585 ACGAACAAAGGGCTGAAAT
1 ACGAACAAAGGGCTGAAAT
56326604 ACGAACAAAGGGCTGAAAT
1 ACGAACAAAGGGCTGAAAT
56326623 ACGAACAAAGGG
1 ACGAACAAAGGG
56326635 GGGTGCCGCC
Statistics
Matches: 31, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
19 31 1.00
ACGTcount: A:0.48, C:0.16, G:0.28, T:0.08
Consensus pattern (19 bp):
ACGAACAAAGGGCTGAAAT
Found at i:56326684 original size:27 final size:27
Alignment explanation
Indices: 56326636--56326702 Score: 89
Period size: 27 Copynumber: 2.5 Consensus size: 27
56326626 AACAAAGGGG
* **
56326636 GGTGCCGCCTGTGGCAGTGGCACCATT
1 GGTGCCGCCTGTGCCACAGGCACCATT
*
56326663 GGTGCCGCCTTTGCCACAGGCACCATT
1 GGTGCCGCCTGTGCCACAGGCACCATT
*
56326690 GGTGCTGCCTGTG
1 GGTGCCGCCTGTG
56326703 GCAGGCCCTC
Statistics
Matches: 34, Mismatches: 6, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
27 34 1.00
ACGTcount: A:0.10, C:0.31, G:0.34, T:0.24
Consensus pattern (27 bp):
GGTGCCGCCTGTGCCACAGGCACCATT
Found at i:56331784 original size:23 final size:23
Alignment explanation
Indices: 56331758--56331810 Score: 97
Period size: 23 Copynumber: 2.3 Consensus size: 23
56331748 ATAAGTGCAA
56331758 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
56331781 CACTGTTATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56331804 CACTGAT
1 CACTGAT
56331811 CAATAACACT
Statistics
Matches: 28, Mismatches: 2, Indels: 0
0.93 0.07 0.00
Matches are distributed among these distances:
23 28 1.00
ACGTcount: A:0.28, C:0.26, G:0.21, T:0.25
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:56358201 original size:25 final size:25
Alignment explanation
Indices: 56358170--56358221 Score: 68
Period size: 25 Copynumber: 2.1 Consensus size: 25
56358160 TACATATATC
* *
56358170 TTGATTTTATTTGATTCCAATGAAT
1 TTGATTTGATTTGATTCAAATGAAT
* *
56358195 TTGATTTGATTTTATTCAAATTAAT
1 TTGATTTGATTTGATTCAAATGAAT
56358220 TT
1 TT
56358222 TAAATGCTCA
Statistics
Matches: 23, Mismatches: 4, Indels: 0
0.85 0.15 0.00
Matches are distributed among these distances:
25 23 1.00
ACGTcount: A:0.29, C:0.06, G:0.10, T:0.56
Consensus pattern (25 bp):
TTGATTTGATTTGATTCAAATGAAT
Found at i:56358665 original size:6 final size:6
Alignment explanation
Indices: 56358649--56358723 Score: 102
Period size: 6 Copynumber: 13.0 Consensus size: 6
56358639 TTAAATATAA
* **
56358649 ATATTT AT-TTT ATTTTT ATATAA ATA-TT -TATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT ATATTT
56358694 ATATTT ATATTT ATATTT ATATTT ATATTT
1 ATATTT ATATTT ATATTT ATATTT ATATTT
56358724 GTTCGCTAAC
Statistics
Matches: 61, Mismatches: 5, Indels: 6
0.85 0.07 0.08
Matches are distributed among these distances:
4 2 0.03
5 7 0.11
6 52 0.85
ACGTcount: A:0.33, C:0.00, G:0.00, T:0.67
Consensus pattern (6 bp):
ATATTT
Found at i:56358952 original size:85 final size:83
Alignment explanation
Indices: 56358852--56359098 Score: 257
Period size: 84 Copynumber: 2.9 Consensus size: 83
56358842 GAGAATAAAA
* * * * *
56358852 AATTAAAATTGAATAAAATTTGTTTCAGGATTTATTCCCGTCGTTTAATATATTTTATTCTATTT
1 AATTAAAATTAAATAAAATTTATTT-AGGATTTATTCCCGACGTTTAACAGATTTTATTCTATTT
56358917 TGATTTTGTTTCCAATTCAG
65 TGATTTTGTTTCCAA-TCAG
* ** * *
56358937 AATTAAAATTAAAT--AATTCTATTTGGGAATTTATTCATGACGCTTAACAGATTTTATTCCATT
1 AATTAAAATTAAATAAAATT-TATTTAGG-ATTTATTCCCGACGTTTAACAGATTTTATTCTATT
* *
56359000 TTGATTTTGTTTTCGAATGAG
64 TTGATTTTG-TTTCCAATCAG
* * * *
56359021 AATTAAAAATTAAATAAAATTTATTTTGAAATTTATTCCCGCCATTTAACAGATTTTATT-TGAT
1 AATT-AAAATTAAATAAAATTTATTTAG-GATTTATTCCCGACGTTTAACAGATTTTATTCT-AT
56359085 TTTGATTTTGTTTC
63 TTTGATTTTGTTTC
56359099 TCATTTGAAA
Statistics
Matches: 134, Mismatches: 20, Indels: 16
0.79 0.12 0.09
Matches are distributed among these distances:
83 6 0.04
84 48 0.36
85 33 0.25
86 43 0.32
87 4 0.03
ACGTcount: A:0.32, C:0.10, G:0.11, T:0.48
Consensus pattern (83 bp):
AATTAAAATTAAATAAAATTTATTTAGGATTTATTCCCGACGTTTAACAGATTTTATTCTATTTT
GATTTTGTTTCCAATCAG
Found at i:56359079 original size:86 final size:85
Alignment explanation
Indices: 56358881--56359097 Score: 251
Period size: 86 Copynumber: 2.6 Consensus size: 85
56358871 TTGTTTCAGG
* * * *
56358881 ATTTATTCCCGTCGTTTAATATATTTTATTCTATTTTGATTTTG-TTTCCAATTCAGAATTAAAA
1 ATTTATTCCCGACGTTTAACAGATTTTATTCCATTTTGATTTTGTTTTCCAATTCAGAATTAAAA
*
56358945 TTAAATAATTCTATTTGGGA
66 TTAAATAATTCTATTTGGAA
** * * *
56358965 ATTTATTCATGACGCTTAACAGATTTTATTCCATTTTGATTTTGTTTTCGAA-TGAGAATTAAAA
1 ATTTATTCCCGACGTTTAACAGATTTTATTCCATTTTGATTTTGTTTTCCAATTCAGAATT-AAA
*
56359029 ATTAAATAAAATT-TATTTTGAA
65 ATTAAAT--AATTCTATTTGGAA
* * **
56359051 ATTTATTCCCGCCATTTAACAGATTTTATTTGATTTTGATTTTGTTT
1 ATTTATTCCCGACGTTTAACAGATTTTATTCCATTTTGATTTTGTTT
56359098 CTCATTTGAA
Statistics
Matches: 111, Mismatches: 18, Indels: 6
0.82 0.13 0.04
Matches are distributed among these distances:
84 44 0.40
85 16 0.14
86 47 0.42
87 4 0.04
ACGTcount: A:0.30, C:0.10, G:0.10, T:0.49
Consensus pattern (85 bp):
ATTTATTCCCGACGTTTAACAGATTTTATTCCATTTTGATTTTGTTTTCCAATTCAGAATTAAAA
TTAAATAATTCTATTTGGAA
Found at i:56359260 original size:85 final size:84
Alignment explanation
Indices: 56359117--56359290 Score: 215
Period size: 85 Copynumber: 2.0 Consensus size: 84
56359107 AAAAAGTAAA
* * * *
56359117 AATTCTCGTTTAAAAACAAAATCAAAATGGAATAAAATCGGTTAAACAACGAAAATAAATTCCTA
1 AATTCTCGTTTAAAAACAAAATCAAAAAGGAAAAAAATCGATTAAAC-ACGAAAATAAATTCCAA
* *
56359182 AATAGATTTTATTTAATTTT
65 AACAGATTTTATTCAATTTT
** * * *
56359202 AATTCTCGTTTGGAAACAAAATCAAAAAGGAAAAAAATCTATTAAAC-GGTATGAATAAATTCCA
1 AATTCTCGTTTAAAAACAAAATCAAAAAGGAAAAAAATCGATTAAACACG-A-AAATAAATTCCA
56359266 AAACAGATTTTATTCAATTTT
64 AAACAGATTTTATTCAATTTT
56359287 AATT
1 AATT
56359291 TTTTATTCTC
Statistics
Matches: 76, Mismatches: 11, Indels: 4
0.84 0.12 0.04
Matches are distributed among these distances:
83 1 0.01
84 1 0.01
85 74 0.97
ACGTcount: A:0.48, C:0.11, G:0.09, T:0.32
Consensus pattern (84 bp):
AATTCTCGTTTAAAAACAAAATCAAAAAGGAAAAAAATCGATTAAACACGAAAATAAATTCCAAA
ACAGATTTTATTCAATTTT
Found at i:56361308 original size:11 final size:11
Alignment explanation
Indices: 56361292--56361332 Score: 55
Period size: 11 Copynumber: 3.7 Consensus size: 11
56361282 TATTTTCTCC
56361292 CTATTTTACTA
1 CTATTTTACTA
*
56361303 CCATTTTACTA
1 CTATTTTACTA
* *
56361314 TTATATTACTA
1 CTATTTTACTA
56361325 CTATTTTA
1 CTATTTTA
56361333 TTGTTATTGT
Statistics
Matches: 24, Mismatches: 6, Indels: 0
0.80 0.20 0.00
Matches are distributed among these distances:
11 24 1.00
ACGTcount: A:0.29, C:0.17, G:0.00, T:0.54
Consensus pattern (11 bp):
CTATTTTACTA
Found at i:56362065 original size:19 final size:18
Alignment explanation
Indices: 56362041--56362081 Score: 57
Period size: 18 Copynumber: 2.2 Consensus size: 18
56362031 TTGGTATGGA
56362041 TATTGTATAACATTTGTT-T
1 TATTGT-TAA-ATTTGTTAT
56362060 TATTGTTAAATTTGTTAT
1 TATTGTTAAATTTGTTAT
56362078 TATT
1 TATT
56362082 TTAGAGGCAT
Statistics
Matches: 21, Mismatches: 0, Indels: 3
0.88 0.00 0.12
Matches are distributed among these distances:
17 7 0.33
18 8 0.38
19 6 0.29
ACGTcount: A:0.27, C:0.02, G:0.10, T:0.61
Consensus pattern (18 bp):
TATTGTTAAATTTGTTAT
Found at i:56368603 original size:24 final size:24
Alignment explanation
Indices: 56368574--56368619 Score: 92
Period size: 24 Copynumber: 1.9 Consensus size: 24
56368564 AAAATGATTG
56368574 TTTAAAATATAAATATTTTACTCA
1 TTTAAAATATAAATATTTTACTCA
56368598 TTTAAAATATAAATATTTTACT
1 TTTAAAATATAAATATTTTACT
56368620 AACAATTATT
Statistics
Matches: 22, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
24 22 1.00
ACGTcount: A:0.46, C:0.07, G:0.00, T:0.48
Consensus pattern (24 bp):
TTTAAAATATAAATATTTTACTCA
Found at i:56370391 original size:3 final size:3
Alignment explanation
Indices: 56370383--56370421 Score: 78
Period size: 3 Copynumber: 13.0 Consensus size: 3
56370373 TGCATTTACT
56370383 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
1 TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA TCA
56370422 ACTTCCTCAT
Statistics
Matches: 36, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 36 1.00
ACGTcount: A:0.33, C:0.33, G:0.00, T:0.33
Consensus pattern (3 bp):
TCA
Found at i:56374067 original size:33 final size:34
Alignment explanation
Indices: 56374025--56374092 Score: 111
Period size: 34 Copynumber: 2.0 Consensus size: 34
56374015 ACTCGGAATC
*
56374025 ATTGAAAAATT-GCAAAATAAATAAATTCTCTCA
1 ATTGAAAAATTAGAAAAATAAATAAATTCTCTCA
*
56374058 ATTGAAAAATTATAAAAATAAATAAATTCTCTCA
1 ATTGAAAAATTAGAAAAATAAATAAATTCTCTCA
56374092 A
1 A
56374093 ATAATATTTC
Statistics
Matches: 32, Mismatches: 2, Indels: 1
0.91 0.06 0.03
Matches are distributed among these distances:
33 11 0.34
34 21 0.66
ACGTcount: A:0.54, C:0.10, G:0.04, T:0.31
Consensus pattern (34 bp):
ATTGAAAAATTAGAAAAATAAATAAATTCTCTCA
Found at i:56374147 original size:17 final size:17
Alignment explanation
Indices: 56374127--56374180 Score: 55
Period size: 17 Copynumber: 3.5 Consensus size: 17
56374117 GACAAGAGTA
56374127 AAAATAAAGATAATTTC
1 AAAATAAAGATAATTTC
56374144 AAAAT-AA-AT--TTT-
1 AAAATAAAGATAATTTC
*
56374156 AAAACAAAGATAATTTC
1 AAAATAAAGATAATTTC
*
56374173 AAGATAAA
1 AAAATAAA
56374181 TTTTAAAGAA
Statistics
Matches: 29, Mismatches: 3, Indels: 10
0.69 0.07 0.24
Matches are distributed among these distances:
12 4 0.14
13 5 0.17
14 2 0.07
15 2 0.07
16 5 0.17
17 11 0.38
ACGTcount: A:0.61, C:0.06, G:0.06, T:0.28
Consensus pattern (17 bp):
AAAATAAAGATAATTTC
Found at i:56374164 original size:29 final size:29
Alignment explanation
Indices: 56374127--56374187 Score: 104
Period size: 29 Copynumber: 2.1 Consensus size: 29
56374117 GACAAGAGTA
*
56374127 AAAATAAAGATAATTTCAAAATAAATTTT
1 AAAACAAAGATAATTTCAAAATAAATTTT
*
56374156 AAAACAAAGATAATTTCAAGATAAATTTT
1 AAAACAAAGATAATTTCAAAATAAATTTT
56374185 AAA
1 AAA
56374188 GAATACTATT
Statistics
Matches: 30, Mismatches: 2, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
29 30 1.00
ACGTcount: A:0.59, C:0.05, G:0.05, T:0.31
Consensus pattern (29 bp):
AAAACAAAGATAATTTCAAAATAAATTTT
Found at i:56379548 original size:30 final size:32
Alignment explanation
Indices: 56379490--56379559 Score: 99
Period size: 30 Copynumber: 2.2 Consensus size: 32
56379480 TACTAACTAA
56379490 ATTTAAAAAAATTATAAAATGATAATTAAATT
1 ATTTAAAAAAATTATAAAATGATAATTAAATT
** *
56379522 ATTTAAAAAAATTATTTAA-G-TTATTAAATT
1 ATTTAAAAAAATTATAAAATGATAATTAAATT
56379552 ATTTAAAA
1 ATTTAAAA
56379560 TTTTTTATTT
Statistics
Matches: 35, Mismatches: 3, Indels: 2
0.88 0.08 0.05
Matches are distributed among these distances:
30 17 0.49
31 1 0.03
32 17 0.49
ACGTcount: A:0.56, C:0.00, G:0.03, T:0.41
Consensus pattern (32 bp):
ATTTAAAAAAATTATAAAATGATAATTAAATT
Found at i:56379571 original size:31 final size:31
Alignment explanation
Indices: 56379514--56379596 Score: 98
Period size: 30 Copynumber: 2.7 Consensus size: 31
56379504 TAAAATGATA
*** *
56379514 ATTAAATTATTTAAAA-AAATTATTTAAGTT
1 ATTAAATTATTTAAAATTTTTTATTTAAGTC
56379544 ATTAAATTATTTAAAATTTTTTATTTAAGTC
1 ATTAAATTATTTAAAATTTTTTATTTAAGTC
* *
56379575 ATTAAACT-TTTAAATTTTTTTA
1 ATTAAATTATTTAAAATTTTTTA
56379597 AAAAAATTTT
Statistics
Matches: 46, Mismatches: 6, Indels: 2
0.85 0.11 0.04
Matches are distributed among these distances:
30 29 0.63
31 17 0.37
ACGTcount: A:0.42, C:0.02, G:0.02, T:0.53
Consensus pattern (31 bp):
ATTAAATTATTTAAAATTTTTTATTTAAGTC
Found at i:56379587 original size:30 final size:31
Alignment explanation
Indices: 56379533--56379596 Score: 94
Period size: 31 Copynumber: 2.1 Consensus size: 31
56379523 TTTAAAAAAA
* *
56379533 TTATTTAAGTTATTAAATTATTTAAAATTTT
1 TTATTTAAGTCATTAAACTATTTAAAATTTT
*
56379564 TTATTTAAGTCATTAAACT-TTTAAATTTTT
1 TTATTTAAGTCATTAAACTATTTAAAATTTT
56379594 TTA
1 TTA
56379597 AAAAAATTTT
Statistics
Matches: 30, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 13 0.43
31 17 0.57
ACGTcount: A:0.36, C:0.03, G:0.03, T:0.58
Consensus pattern (31 bp):
TTATTTAAGTCATTAAACTATTTAAAATTTT
Found at i:56387185 original size:30 final size:31
Alignment explanation
Indices: 56387134--56387195 Score: 90
Period size: 30 Copynumber: 2.0 Consensus size: 31
56387124 ACTTAACAGC
56387134 TTAATAACTTAAAAAAATATTTTTAAACAAT
1 TTAATAACTTAAAAAAATATTTTTAAACAAT
* * *
56387165 TTAATAA-TTTAAATAATATTTTTAAATAAT
1 TTAATAACTTAAAAAAATATTTTTAAACAAT
56387195 T
1 T
56387196 AAGTCACTAA
Statistics
Matches: 28, Mismatches: 3, Indels: 1
0.88 0.09 0.03
Matches are distributed among these distances:
30 21 0.75
31 7 0.25
ACGTcount: A:0.52, C:0.03, G:0.00, T:0.45
Consensus pattern (31 bp):
TTAATAACTTAAAAAAATATTTTTAAACAAT
Found at i:56396495 original size:24 final size:25
Alignment explanation
Indices: 56396448--56396495 Score: 62
Period size: 24 Copynumber: 2.0 Consensus size: 25
56396438 TTGTCAATTT
**
56396448 AATATCAATTCTAAAAATTCAAAAA
1 AATATCAATTCTAAAAATAAAAAAA
*
56396473 AATA-CAATTTTAAAAATAAAAAA
1 AATATCAATTCTAAAAATAAAAAA
56396496 TATTATAAAA
Statistics
Matches: 20, Mismatches: 3, Indels: 1
0.83 0.12 0.04
Matches are distributed among these distances:
24 16 0.80
25 4 0.20
ACGTcount: A:0.65, C:0.08, G:0.00, T:0.27
Consensus pattern (25 bp):
AATATCAATTCTAAAAATAAAAAAA
Found at i:56404305 original size:21 final size:21
Alignment explanation
Indices: 56404281--56404322 Score: 75
Period size: 21 Copynumber: 2.0 Consensus size: 21
56404271 GTGAAGAAAA
*
56404281 GATTCTGACCTGAAAATAAGG
1 GATTCTGACCTCAAAATAAGG
56404302 GATTCTGACCTCAAAATAAGG
1 GATTCTGACCTCAAAATAAGG
56404323 ACAGCAATAG
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
21 20 1.00
ACGTcount: A:0.38, C:0.17, G:0.21, T:0.24
Consensus pattern (21 bp):
GATTCTGACCTCAAAATAAGG
Found at i:56404790 original size:21 final size:21
Alignment explanation
Indices: 56404766--56404820 Score: 83
Period size: 21 Copynumber: 2.6 Consensus size: 21
56404756 AACAGCGGTG
* *
56404766 GCGGTAAGATTAGTTACTGTA
1 GCGGTGAGATTAGGTACTGTA
*
56404787 GCGGTGAGATTGGGTACTGTA
1 GCGGTGAGATTAGGTACTGTA
56404808 GCGGTGAGATTAG
1 GCGGTGAGATTAG
56404821 AAACAATGGT
Statistics
Matches: 30, Mismatches: 4, Indels: 0
0.88 0.12 0.00
Matches are distributed among these distances:
21 30 1.00
ACGTcount: A:0.24, C:0.09, G:0.38, T:0.29
Consensus pattern (21 bp):
GCGGTGAGATTAGGTACTGTA
Found at i:56405133 original size:22 final size:22
Alignment explanation
Indices: 56405082--56405133 Score: 52
Period size: 22 Copynumber: 2.3 Consensus size: 22
56405072 TTTTATAGTT
*
56405082 ATAATTAAATATTTTTTATAACA
1 ATAA-TAAATATTATTTATAACA
* *
56405105 ATGATAAATATTATTT-TCACAA
1 ATAATAAATATTATTTATAAC-A
56405127 ATAATAA
1 ATAATAA
56405134 CACTATACTT
Statistics
Matches: 24, Mismatches: 4, Indels: 3
0.77 0.13 0.10
Matches are distributed among these distances:
21 3 0.12
22 18 0.75
23 3 0.12
ACGTcount: A:0.50, C:0.06, G:0.02, T:0.42
Consensus pattern (22 bp):
ATAATAAATATTATTTATAACA
Found at i:56411372 original size:12 final size:12
Alignment explanation
Indices: 56411355--56411379 Score: 50
Period size: 12 Copynumber: 2.1 Consensus size: 12
56411345 TTGCAGGAGA
56411355 TGTTTTCTTATT
1 TGTTTTCTTATT
56411367 TGTTTTCTTATT
1 TGTTTTCTTATT
56411379 T
1 T
56411380 TATCAGGTCT
Statistics
Matches: 13, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
12 13 1.00
ACGTcount: A:0.08, C:0.08, G:0.08, T:0.76
Consensus pattern (12 bp):
TGTTTTCTTATT
Found at i:56412403 original size:16 final size:16
Alignment explanation
Indices: 56412365--56412406 Score: 57
Period size: 16 Copynumber: 2.6 Consensus size: 16
56412355 TATTTTTTTA
56412365 TTAATTTATATATATTT
1 TTAATTTA-ATATATTT
**
56412382 GAAATTTAATATATTT
1 TTAATTTAATATATTT
56412398 TTAATTTAA
1 TTAATTTAA
56412407 AATAATAGTA
Statistics
Matches: 21, Mismatches: 4, Indels: 1
0.81 0.15 0.04
Matches are distributed among these distances:
16 15 0.71
17 6 0.29
ACGTcount: A:0.40, C:0.00, G:0.02, T:0.57
Consensus pattern (16 bp):
TTAATTTAATATATTT
Found at i:56414458 original size:16 final size:17
Alignment explanation
Indices: 56414437--56414472 Score: 56
Period size: 17 Copynumber: 2.2 Consensus size: 17
56414427 AAAAATTATA
*
56414437 TTTTCTA-CCCTTCTAT
1 TTTTCTACCCCTTCAAT
56414453 TTTTCTACCCCTTCAAT
1 TTTTCTACCCCTTCAAT
56414470 TTT
1 TTT
56414473 CCATCTTTCC
Statistics
Matches: 18, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
16 7 0.39
17 11 0.61
ACGTcount: A:0.14, C:0.31, G:0.00, T:0.56
Consensus pattern (17 bp):
TTTTCTACCCCTTCAAT
Found at i:56414473 original size:16 final size:16
Alignment explanation
Indices: 56414436--56414473 Score: 51
Period size: 16 Copynumber: 2.4 Consensus size: 16
56414426 GAAAAATTAT
56414436 ATTTTCTACCCTTCTA
1 ATTTTCTACCCTTCTA
*
56414452 TTTTTCTACCCCTTC-A
1 ATTTTCTA-CCCTTCTA
56414468 ATTTTC
1 ATTTTC
56414474 CATCTTTCCA
Statistics
Matches: 19, Mismatches: 2, Indels: 2
0.83 0.09 0.09
Matches are distributed among these distances:
16 13 0.68
17 6 0.32
ACGTcount: A:0.16, C:0.32, G:0.00, T:0.53
Consensus pattern (16 bp):
ATTTTCTACCCTTCTA
Found at i:56428266 original size:3 final size:3
Alignment explanation
Indices: 56428258--56428312 Score: 110
Period size: 3 Copynumber: 18.3 Consensus size: 3
56428248 TATGTCATCC
56428258 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
1 ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA ATA
56428306 ATA ATA A
1 ATA ATA A
56428313 AACACCTCAG
Statistics
Matches: 52, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
3 52 1.00
ACGTcount: A:0.67, C:0.00, G:0.00, T:0.33
Consensus pattern (3 bp):
ATA
Found at i:56430010 original size:12 final size:12
Alignment explanation
Indices: 56429993--56430030 Score: 51
Period size: 12 Copynumber: 3.2 Consensus size: 12
56429983 ATGAGACAAA
56429993 ATTCTAGTATAT
1 ATTCTAGTATAT
*
56430005 ATTCTAGAATA-
1 ATTCTAGTATAT
56430016 ATTCTAGTATTAT
1 ATTCTAGTA-TAT
56430029 AT
1 AT
56430031 GTTGAAGGAA
Statistics
Matches: 22, Mismatches: 2, Indels: 3
0.81 0.07 0.11
Matches are distributed among these distances:
11 8 0.36
12 12 0.55
13 2 0.09
ACGTcount: A:0.37, C:0.08, G:0.08, T:0.47
Consensus pattern (12 bp):
ATTCTAGTATAT
Found at i:56435527 original size:12 final size:13
Alignment explanation
Indices: 56435510--56435542 Score: 50
Period size: 12 Copynumber: 2.6 Consensus size: 13
56435500 TAAGTGATGA
56435510 AATTTTATCAT-G
1 AATTTTATCATAG
56435522 AATTTTATCATAG
1 AATTTTATCATAG
*
56435535 TATTTTAT
1 AATTTTAT
56435543 TAGAAATTGA
Statistics
Matches: 19, Mismatches: 1, Indels: 1
0.90 0.05 0.05
Matches are distributed among these distances:
12 11 0.58
13 8 0.42
ACGTcount: A:0.33, C:0.06, G:0.06, T:0.55
Consensus pattern (13 bp):
AATTTTATCATAG
Found at i:56439639 original size:22 final size:20
Alignment explanation
Indices: 56439614--56439654 Score: 55
Period size: 20 Copynumber: 1.9 Consensus size: 20
56439604 AAAAAATAGA
56439614 TTAATACAAATAAATAAATTTT
1 TTAATA-AAA-AAATAAATTTT
*
56439636 TTAATAAAAATATAAATTT
1 TTAATAAAAAAATAAATTT
56439655 CCTCATTAAT
Statistics
Matches: 18, Mismatches: 1, Indels: 2
0.86 0.05 0.10
Matches are distributed among these distances:
20 9 0.50
21 3 0.17
22 6 0.33
ACGTcount: A:0.56, C:0.02, G:0.00, T:0.41
Consensus pattern (20 bp):
TTAATAAAAAAATAAATTTT
Found at i:56440446 original size:2 final size:2
Alignment explanation
Indices: 56440439--56440496 Score: 116
Period size: 2 Copynumber: 29.0 Consensus size: 2
56440429 TACTAAATTA
56440439 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT CT
56440481 CT CT CT CT CT CT CT CT
1 CT CT CT CT CT CT CT CT
56440497 ATAAAGGTGC
Statistics
Matches: 56, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
2 56 1.00
ACGTcount: A:0.00, C:0.50, G:0.00, T:0.50
Consensus pattern (2 bp):
CT
Found at i:56443006 original size:18 final size:18
Alignment explanation
Indices: 56442985--56443019 Score: 61
Period size: 18 Copynumber: 1.9 Consensus size: 18
56442975 ATTCAGGTAC
*
56442985 TCTTGCTTATATTGATTA
1 TCTTGCTTATACTGATTA
56443003 TCTTGCTTATACTGATT
1 TCTTGCTTATACTGATT
56443020 GCCTTTCCTA
Statistics
Matches: 16, Mismatches: 1, Indels: 0
0.94 0.06 0.00
Matches are distributed among these distances:
18 16 1.00
ACGTcount: A:0.20, C:0.14, G:0.11, T:0.54
Consensus pattern (18 bp):
TCTTGCTTATACTGATTA
Found at i:56443727 original size:84 final size:84
Alignment explanation
Indices: 56443630--56443800 Score: 315
Period size: 84 Copynumber: 2.0 Consensus size: 84
56443620 GCTTCCCCAA
*
56443630 GTTAAAAGAAGAATGAACTCATAAATTGTTAAACCAGCTCATTCTCTTCTGGACCTGGTACTATA
1 GTTAAAAGAAGAATGAACTCATAAATTGTTAAACCAGCTCATTCTCTTCTGGAACTGGTACTATA
* *
56443695 TTTTATGCTCATATAGTGT
66 TATTATGCTCATATAGCGT
56443714 GTTAAAAGAAGAATGAACTCATAAATTGTTAAACCAGCTCATTCTCTTCTGGAACTGGTACTATA
1 GTTAAAAGAAGAATGAACTCATAAATTGTTAAACCAGCTCATTCTCTTCTGGAACTGGTACTATA
56443779 TATTATGCTCATATAGCGT
66 TATTATGCTCATATAGCGT
56443798 GTT
1 GTT
56443801 TTATGGTTAT
Statistics
Matches: 84, Mismatches: 3, Indels: 0
0.97 0.03 0.00
Matches are distributed among these distances:
84 84 1.00
ACGTcount: A:0.33, C:0.16, G:0.16, T:0.35
Consensus pattern (84 bp):
GTTAAAAGAAGAATGAACTCATAAATTGTTAAACCAGCTCATTCTCTTCTGGAACTGGTACTATA
TATTATGCTCATATAGCGT
Found at i:56458494 original size:8 final size:8
Alignment explanation
Indices: 56458483--56458514 Score: 55
Period size: 8 Copynumber: 4.0 Consensus size: 8
56458473 TAAGTTATTA
56458483 TATTATAT
1 TATTATAT
*
56458491 TATTATAA
1 TATTATAT
56458499 TATTATAT
1 TATTATAT
56458507 TATTATAT
1 TATTATAT
56458515 ACATAAAACA
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
8 22 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (8 bp):
TATTATAT
Found at i:56458501 original size:16 final size:16
Alignment explanation
Indices: 56458477--56458513 Score: 65
Period size: 16 Copynumber: 2.3 Consensus size: 16
56458467 AATAAGTAAG
*
56458477 TTATTATATTATATTA
1 TTATAATATTATATTA
56458493 TTATAATATTATATTA
1 TTATAATATTATATTA
56458509 TTATA
1 TTATA
56458514 TACATAAAAC
Statistics
Matches: 20, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
16 20 1.00
ACGTcount: A:0.41, C:0.00, G:0.00, T:0.59
Consensus pattern (16 bp):
TTATAATATTATATTA
Found at i:56459215 original size:14 final size:14
Alignment explanation
Indices: 56459196--56459224 Score: 58
Period size: 14 Copynumber: 2.1 Consensus size: 14
56459186 TACTACAAGC
56459196 TTATTTTATTTAAA
1 TTATTTTATTTAAA
56459210 TTATTTTATTTAAA
1 TTATTTTATTTAAA
56459224 T
1 T
56459225 GTTTATATTA
Statistics
Matches: 15, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
14 15 1.00
ACGTcount: A:0.34, C:0.00, G:0.00, T:0.66
Consensus pattern (14 bp):
TTATTTTATTTAAA
Found at i:56459599 original size:25 final size:24
Alignment explanation
Indices: 56459571--56459704 Score: 125
Period size: 25 Copynumber: 5.6 Consensus size: 24
56459561 CTTTAGCGCA
56459571 CTCTCTGATTATTAGCACGTTAGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
* * *
56459596 CTCTCTGACTACTAGCACGTTGGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
*
56459621 CTCTCTGATT-TTAGCACGTCAGTG
1 CTCTCTG-TTATTAGCACGTTAGTG
* *
56459645 CTCTCTGTT-TTGGCACATCT-GTG
1 CTCTCTGTTATTAGCACGT-TAGTG
*
56459668 CTCTCTG-TA-TAGCACTTTAGTG
1 CTCTCTGTTATTAGCACGTTAGTG
56459690 CTCTCTGTTCATTAG
1 CTCTCTGTT-ATTAG
56459705 TGCATACCAA
Statistics
Matches: 91, Mismatches: 12, Indels: 12
0.79 0.10 0.10
Matches are distributed among these distances:
21 1 0.01
22 17 0.19
23 20 0.22
24 19 0.21
25 34 0.37
ACGTcount: A:0.16, C:0.25, G:0.20, T:0.40
Consensus pattern (24 bp):
CTCTCTGTTATTAGCACGTTAGTG
Found at i:56459660 original size:23 final size:23
Alignment explanation
Indices: 56459618--56459698 Score: 92
Period size: 23 Copynumber: 3.5 Consensus size: 23
56459608 TAGCACGTTG
*
56459618 GTGCTCTCTGATTTTAGCACGTCA
1 GTGCTCTCTG-TTTTAGCACATCA
* *
56459642 GTGCTCTCTGTTTTGGCACATCT
1 GTGCTCTCTGTTTTAGCACATCA
* * *
56459665 GTGCTCTCTG-TATAGCACTTTA
1 GTGCTCTCTGTTTTAGCACATCA
56459687 GTGCTCTCTGTT
1 GTGCTCTCTGTT
56459699 CATTAGTGCA
Statistics
Matches: 48, Mismatches: 8, Indels: 3
0.81 0.14 0.05
Matches are distributed among these distances:
22 17 0.35
23 21 0.44
24 10 0.21
ACGTcount: A:0.12, C:0.25, G:0.21, T:0.42
Consensus pattern (23 bp):
GTGCTCTCTGTTTTAGCACATCA
Found at i:56461081 original size:26 final size:26
Alignment explanation
Indices: 56461045--56461094 Score: 82
Period size: 26 Copynumber: 1.9 Consensus size: 26
56461035 TTGAATAAAA
56461045 AGGGGTCGCTAAGTGCAGATTCCCCG
1 AGGGGTCGCTAAGTGCAGATTCCCCG
* *
56461071 AGGGGTTGCTAAGTGCTGATTCCC
1 AGGGGTCGCTAAGTGCAGATTCCC
56461095 TGAATTATTG
Statistics
Matches: 22, Mismatches: 2, Indels: 0
0.92 0.08 0.00
Matches are distributed among these distances:
26 22 1.00
ACGTcount: A:0.18, C:0.24, G:0.34, T:0.24
Consensus pattern (26 bp):
AGGGGTCGCTAAGTGCAGATTCCCCG
Found at i:56461173 original size:43 final size:42
Alignment explanation
Indices: 56461111--56461223 Score: 126
Period size: 43 Copynumber: 2.7 Consensus size: 42
56461101 ATTGACTCTA
* *
56461111 AAGGTGGTCT-CTAAGTGCTGACTCCACCGTATCTTTG-ATTGT
1 AAGGTGGT-TGCTAAGTGCTGAATCCACCGTATCGTTGAATT-T
* *
56461153 GAAAGG-GGTTGCTATGTGCTGATTCC-CCGTATCGTTGAATTT
1 --AAGGTGGTTGCTAAGTGCTGAATCCACCGTATCGTTGAATTT
56461195 AAGGTGGTTGCTAAGTGCTGAATCCACCG
1 AAGGTGGTTGCTAAGTGCTGAATCCACCG
56461224 AGTAACGAAT
Statistics
Matches: 60, Mismatches: 5, Indels: 10
0.80 0.07 0.13
Matches are distributed among these distances:
40 4 0.07
41 18 0.30
42 15 0.25
43 19 0.32
44 4 0.07
ACGTcount: A:0.20, C:0.19, G:0.27, T:0.33
Consensus pattern (42 bp):
AAGGTGGTTGCTAAGTGCTGAATCCACCGTATCGTTGAATTT
Found at i:56461185 original size:42 final size:41
Alignment explanation
Indices: 56461074--56461215 Score: 139
Period size: 42 Copynumber: 3.4 Consensus size: 41
56461064 TTCCCCGAGG
* * *
56461074 GGTTGCTAAGTGCTGATTCCCTGAAT-TATTGACTCTAAAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCT-TTGA-TTTAAAGGT
*
56461116 GGTCT-CTAAGTGCTGACTCCACCGTATCTTTGATTGTGAAAGG-
1 GGT-TGCTAAGTGCTGATTCC-CCGTATCTTTGATT-T-AAAGGT
* *
56461159 GGTTGCTATGTGCTGATTCCCCGTATCGTTGAATTT-AAGGT
1 GGTTGCTAAGTGCTGATTCCCCGTATCTTTG-ATTTAAAGGT
56461200 GGTTGCTAAGTGCTGA
1 GGTTGCTAAGTGCTGA
56461216 ATCCACCGAG
Statistics
Matches: 84, Mismatches: 8, Indels: 17
0.77 0.07 0.16
Matches are distributed among these distances:
40 4 0.05
41 15 0.18
42 30 0.36
43 29 0.35
44 6 0.07
ACGTcount: A:0.20, C:0.18, G:0.27, T:0.35
Consensus pattern (41 bp):
GGTTGCTAAGTGCTGATTCCCCGTATCTTTGATTTAAAGGT
Found at i:56470703 original size:17 final size:17
Alignment explanation
Indices: 56470681--56470713 Score: 50
Period size: 17 Copynumber: 1.9 Consensus size: 17
56470671 TTGTAGTTCC
56470681 TTTGAAAAC-TTTAAAAA
1 TTTG-AAACTTTTAAAAA
56470698 TTTGAAACTTTTAAAA
1 TTTGAAACTTTTAAAA
56470714 GAAGTTATTT
Statistics
Matches: 15, Mismatches: 0, Indels: 2
0.88 0.00 0.12
Matches are distributed among these distances:
16 4 0.27
17 11 0.73
ACGTcount: A:0.48, C:0.06, G:0.06, T:0.39
Consensus pattern (17 bp):
TTTGAAACTTTTAAAAA
Found at i:56473786 original size:16 final size:16
Alignment explanation
Indices: 56473765--56473809 Score: 54
Period size: 16 Copynumber: 2.8 Consensus size: 16
56473755 TTTTACAAGA
56473765 AAAAAAATTAAATTCT
1 AAAAAAATTAAATTCT
* * *
56473781 AAAAAAAGTAATTTTT
1 AAAAAAATTAAATTCT
*
56473797 AAAAAAATAAAAT
1 AAAAAAATTAAAT
56473810 GAGTGATCAA
Statistics
Matches: 23, Mismatches: 6, Indels: 0
0.79 0.21 0.00
Matches are distributed among these distances:
16 23 1.00
ACGTcount: A:0.67, C:0.02, G:0.02, T:0.29
Consensus pattern (16 bp):
AAAAAAATTAAATTCT
Found at i:56482894 original size:17 final size:18
Alignment explanation
Indices: 56482864--56482897 Score: 52
Period size: 17 Copynumber: 1.9 Consensus size: 18
56482854 TTTTGAATTT
*
56482864 ATTTTTATATATTTTATA
1 ATTTTTATAAATTTTATA
56482882 ATTTTT-TAAATTTTAT
1 ATTTTTATAAATTTTAT
56482898 TCAAAATAAA
Statistics
Matches: 15, Mismatches: 1, Indels: 1
0.88 0.06 0.06
Matches are distributed among these distances:
17 9 0.60
18 6 0.40
ACGTcount: A:0.32, C:0.00, G:0.00, T:0.68
Consensus pattern (18 bp):
ATTTTTATAAATTTTATA
Found at i:56483352 original size:21 final size:21
Alignment explanation
Indices: 56483309--56483352 Score: 52
Period size: 21 Copynumber: 2.1 Consensus size: 21
56483299 TAAGATTTAA
*
56483309 ATTAAAATATATAAAAATTAT
1 ATTAAAATATATAAAAATCAT
* * *
56483330 ATTAAATTATTTAAATATCAT
1 ATTAAAATATATAAAAATCAT
56483351 AT
1 AT
56483353 CACTTAATTT
Statistics
Matches: 19, Mismatches: 4, Indels: 0
0.83 0.17 0.00
Matches are distributed among these distances:
21 19 1.00
ACGTcount: A:0.55, C:0.02, G:0.00, T:0.43
Consensus pattern (21 bp):
ATTAAAATATATAAAAATCAT
Found at i:56487772 original size:58 final size:57
Alignment explanation
Indices: 56487710--56487824 Score: 203
Period size: 58 Copynumber: 2.0 Consensus size: 57
56487700 ATATATATTA
*
56487710 CCTTTTGAATTTCATTTGTTAAGTATGAAAAACAGGATTTTATAAATAAAAAAATCAC
1 CCTTTTGAATTTCATTTGTTAAGTATGAAAAACAAGATTTTATAAA-AAAAAAATCAC
*
56487768 CCTTTTGAATTTCATTTGTTAAGTATTAAAAACAAGATTTTATAAAAAAAAAATCAC
1 CCTTTTGAATTTCATTTGTTAAGTATGAAAAACAAGATTTTATAAAAAAAAAATCAC
56487825 TTACTCTCTA
Statistics
Matches: 55, Mismatches: 2, Indels: 1
0.95 0.03 0.02
Matches are distributed among these distances:
57 11 0.20
58 44 0.80
ACGTcount: A:0.44, C:0.10, G:0.09, T:0.37
Consensus pattern (57 bp):
CCTTTTGAATTTCATTTGTTAAGTATGAAAAACAAGATTTTATAAAAAAAAAATCAC
Found at i:56488818 original size:38 final size:38
Alignment explanation
Indices: 56488714--56488820 Score: 160
Period size: 38 Copynumber: 2.8 Consensus size: 38
56488704 ATACAGATAT
* **
56488714 TAAATCCACAACTTACGTAAAGTATAGGACCAAATTAC
1 TAAATCCACAACTTAAGTAAAGTATAGGGTCAAATTAC
*
56488752 TAAATCCACAACTTAAGTAAAATATAGGGTCAAATTAC
1 TAAATCCACAACTTAAGTAAAGTATAGGGTCAAATTAC
* *
56488790 TAAATTCACAACTTATGTAAAGTATAGGGTC
1 TAAATCCACAACTTAAGTAAAGTATAGGGTC
56488821 TAATAATAGA
Statistics
Matches: 62, Mismatches: 7, Indels: 0
0.90 0.10 0.00
Matches are distributed among these distances:
38 62 1.00
ACGTcount: A:0.44, C:0.17, G:0.12, T:0.27
Consensus pattern (38 bp):
TAAATCCACAACTTAAGTAAAGTATAGGGTCAAATTAC
Found at i:56489363 original size:17 final size:19
Alignment explanation
Indices: 56489341--56489380 Score: 57
Period size: 17 Copynumber: 2.2 Consensus size: 19
56489331 TATTTTTAAT
*
56489341 TAAAATAGAAAA-ATGAA-
1 TAAAATAAAAAAGATGAAG
56489358 TAAAATAAAAAAGATGAAG
1 TAAAATAAAAAAGATGAAG
56489377 TAAA
1 TAAA
56489381 TGTTTTTTAC
Statistics
Matches: 20, Mismatches: 1, Indels: 2
0.87 0.04 0.09
Matches are distributed among these distances:
17 11 0.55
18 5 0.25
19 4 0.20
ACGTcount: A:0.70, C:0.00, G:0.12, T:0.17
Consensus pattern (19 bp):
TAAAATAAAAAAGATGAAG
Found at i:56493995 original size:6 final size:6
Alignment explanation
Indices: 56493986--56494017 Score: 64
Period size: 6 Copynumber: 5.3 Consensus size: 6
56493976 AGGAGGAAAT
56493986 GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GG
1 GGCTTA GGCTTA GGCTTA GGCTTA GGCTTA GG
56494018 ATTGGGCATT
Statistics
Matches: 26, Mismatches: 0, Indels: 0
1.00 0.00 0.00
Matches are distributed among these distances:
6 26 1.00
ACGTcount: A:0.16, C:0.16, G:0.38, T:0.31
Consensus pattern (6 bp):
GGCTTA
Found at i:56494508 original size:11 final size:11
Alignment explanation
Indices: 56494492--56494590 Score: 88
Period size: 11 Copynumber: 9.5 Consensus size: 11
56494482 AATTTTTAAA
56494492 TTTTAAAATAT
1 TTTTAAAATAT
56494503 TTTTAAAATAAT
1 TTTTAAAAT-AT
** *
56494515 TTTTTTATTAT
1 TTTTAAAATAT
*
56494526 TTTT----TAA
1 TTTTAAAATAT
56494533 TTTTAAAATAT
1 TTTTAAAATAT
56494544 TTTTAAAATAT
1 TTTTAAAATAT
56494555 TTTT--AA-A-
1 TTTTAAAATAT
56494562 TTTTAAAATAT
1 TTTTAAAATAT
56494573 TTTTAAAATACT
1 TTTTAAAATA-T
56494585 TTTTAA
1 TTTTAA
56494591 TTTTTAAAAT
Statistics
Matches: 73, Mismatches: 5, Indels: 19
0.75 0.05 0.20
Matches are distributed among these distances:
7 10 0.14
8 1 0.01
9 4 0.05
10 1 0.01
11 42 0.58
12 15 0.21
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (11 bp):
TTTTAAAATAT
Found at i:56494528 original size:41 final size:39
Alignment explanation
Indices: 56494475--56494590 Score: 137
Period size: 41 Copynumber: 2.9 Consensus size: 39
56494465 AATATATTTA
56494475 TTTTTTAAATTTTTAAATTTTAAAATATTTTTAAAATAAT
1 TTTTTTAAATTTTTAAATTTTAAAATATTTTTAAAAT-AT
* *
56494515 TTTTTTATTATTTTTTAATTTTAAAATATTTTTAAAATA-
1 TTTTTTA-AATTTTTAAATTTTAAAATATTTTTAAAATAT
*
56494554 -TTTTTAAATTTTAAAATATTTTTAAAATACTTTTTAA
1 TTTTTTAAATTTT-TAA-A-TTTTAAAATA-TTTTTAA
56494591 TTTTTAAAAT
Statistics
Matches: 66, Mismatches: 5, Indels: 9
0.82 0.06 0.11
Matches are distributed among these distances:
37 5 0.08
38 7 0.11
39 1 0.02
40 18 0.27
41 35 0.53
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (39 bp):
TTTTTTAAATTTTTAAATTTTAAAATATTTTTAAAATAT
Found at i:56494555 original size:29 final size:29
Alignment explanation
Indices: 56494503--56494601 Score: 135
Period size: 29 Copynumber: 3.3 Consensus size: 29
56494493 TTTAAAATAT
** *
56494503 TTTTAAAATAATTTTTTTATTATTTTTTAA
1 TTTTAAAAT-ATTTTTAAAATATTTTTTAA
*
56494533 TTTTAAAATATTTTTAAAATATTTTTAAA
1 TTTTAAAATATTTTTAAAATATTTTTTAA
*
56494562 TTTTAAAATATTTTTAAAATACTTTTTAA
1 TTTTAAAATATTTTTAAAATATTTTTTAA
56494591 TTTTTAAAATA
1 -TTTTAAAATA
56494602 AAGTTTTGGT
Statistics
Matches: 62, Mismatches: 6, Indels: 2
0.89 0.09 0.03
Matches are distributed among these distances:
29 43 0.69
30 19 0.31
ACGTcount: A:0.40, C:0.01, G:0.00, T:0.59
Consensus pattern (29 bp):
TTTTAAAATATTTTTAAAATATTTTTTAA
Found at i:56495258 original size:19 final size:20
Alignment explanation
Indices: 56495206--56495258 Score: 56
Period size: 19 Copynumber: 2.7 Consensus size: 20
56495196 TATCAATGTT
* *
56495206 TAATTTTTAAAATTATCAGTA
1 TAATATTTAAAA-TATCAATA
*
56495227 TAA-ATTAAAAATAT-AATA
1 TAATATTTAAAATATCAATA
56495245 TAATATTTAAAATA
1 TAATATTTAAAATA
56495259 AACTTAAATT
Statistics
Matches: 27, Mismatches: 4, Indels: 4
0.77 0.11 0.11
Matches are distributed among these distances:
18 6 0.22
19 12 0.44
20 6 0.22
21 3 0.11
ACGTcount: A:0.55, C:0.02, G:0.02, T:0.42
Consensus pattern (20 bp):
TAATATTTAAAATATCAATA
Found at i:56496600 original size:21 final size:21
Alignment explanation
Indices: 56496567--56496606 Score: 53
Period size: 21 Copynumber: 1.9 Consensus size: 21
56496557 AACTATCAAG
* *
56496567 AATAAGGTATTTTTCATTTTT
1 AATAAAGTATTTTACATTTTT
*
56496588 AATAAAGTGTTTTACATTT
1 AATAAAGTATTTTACATTT
56496607 ATTTAAATTT
Statistics
Matches: 16, Mismatches: 3, Indels: 0
0.84 0.16 0.00
Matches are distributed among these distances:
21 16 1.00
ACGTcount: A:0.33, C:0.05, G:0.10, T:0.53
Consensus pattern (21 bp):
AATAAAGTATTTTACATTTTT
Found at i:56499950 original size:14 final size:15
Alignment explanation
Indices: 56499931--56499961 Score: 55
Period size: 14 Copynumber: 2.1 Consensus size: 15
56499921 TTAATCTTTT
56499931 TTTATTTTT-ATTTC
1 TTTATTTTTCATTTC
56499945 TTTATTTTTCATTTC
1 TTTATTTTTCATTTC
56499960 TT
1 TT
56499962 CCTCCCCTTT
Statistics
Matches: 16, Mismatches: 0, Indels: 1
0.94 0.00 0.06
Matches are distributed among these distances:
14 9 0.56
15 7 0.44
ACGTcount: A:0.13, C:0.10, G:0.00, T:0.77
Consensus pattern (15 bp):
TTTATTTTTCATTTC
Found at i:56501406 original size:29 final size:30
Alignment explanation
Indices: 56501369--56501425 Score: 80
Period size: 30 Copynumber: 1.9 Consensus size: 30
56501359 TCCGAGCCTT
*
56501369 GGGGAAAAA-TGTAATTATGTAAAAGTTTA
1 GGGGAAAAATTGTAATTATGAAAAAGTTTA
* *
56501398 GGGGCAAAATTGTAATTTTGAAAAAGTT
1 GGGGAAAAATTGTAATTATGAAAAAGTT
56501426 AGAGTCGAGG
Statistics
Matches: 24, Mismatches: 3, Indels: 1
0.86 0.11 0.04
Matches are distributed among these distances:
29 8 0.33
30 16 0.67
ACGTcount: A:0.42, C:0.02, G:0.25, T:0.32
Consensus pattern (30 bp):
GGGGAAAAATTGTAATTATGAAAAAGTTTA
Found at i:56501655 original size:13 final size:13
Alignment explanation
Indices: 56501637--56501668 Score: 55
Period size: 13 Copynumber: 2.5 Consensus size: 13
56501627 TTTCCAGCAA
56501637 TTATGAATTTATT
1 TTATGAATTTATT
56501650 TTATGAATTTATT
1 TTATGAATTTATT
*
56501663 TGATGA
1 TTATGA
56501669 TGATCCAAGC
Statistics
Matches: 18, Mismatches: 1, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
13 18 1.00
ACGTcount: A:0.31, C:0.00, G:0.12, T:0.56
Consensus pattern (13 bp):
TTATGAATTTATT
Found at i:56501877 original size:50 final size:50
Alignment explanation
Indices: 56501762--56502004 Score: 254
Period size: 50 Copynumber: 4.7 Consensus size: 50
56501752 CATTTGGGTA
* * *
56501762 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCAT-C--GAGA-C
*
56501816 ATGAGAGGTCCCCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGAC
1 A--AGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGAC
* * * *
56501868 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCACCGAGAT
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGAC
* * * * * *
56501918 GAGAGGTCCCCTATAAGACCATGTCTGGGACATGGTATGGGCA-CCATCAC
1 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGA-GAC
* **
56501968 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGC
1 AAG-AGGTCCCATGTAAGACCATGTCTGGGACATGGC
56502005 TTTGGCATGT
Statistics
Matches: 162, Mismatches: 23, Indels: 11
0.83 0.12 0.06
Matches are distributed among these distances:
49 2 0.01
50 85 0.52
51 28 0.17
52 2 0.01
53 3 0.02
54 1 0.01
55 1 0.01
56 40 0.25
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.21
Consensus pattern (50 bp):
AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCATGGGCATCGAGAC
Found at i:56501958 original size:100 final size:103
Alignment explanation
Indices: 56501762--56502012 Score: 339
Period size: 100 Copynumber: 2.4 Consensus size: 103
56501752 CATTTGGGTA
56501762 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCTTAAGATCATGAGAGGTCC
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCC---AGATCATGAGAGGTCC
* * *
56501827 CCTGTAAGACCATGTCTGGGACATGGCATGGGCATCGA-GAC
63 CCTATAAGACCATGTCTGGGACATGGCATGGGCA-CCATCAC
* * *
56501868 AAGAGGTCCCATGTAAGACCATGTCTGGGACATGGCGTTGGCA-CC-GA-GATGAGAGGTCCCCT
1 AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
*
56501930 ATAAGACCATGTCTGGGACATGGTATGGGCACCATCAC
66 ATAAGACCATGTCTGGGACATGGCATGGGCACCATCAC
* * *
56501968 GAGAACATCCCATGTAAGACCATGTCTGGGACATGGCTTTGGCAT
1 AAG-AGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCAT
56502013 GTTATTATCA
Statistics
Matches: 131, Mismatches: 11, Indels: 10
0.86 0.07 0.07
Matches are distributed among these distances:
99 2 0.02
100 47 0.36
101 39 0.30
105 2 0.02
106 41 0.31
ACGTcount: A:0.27, C:0.23, G:0.29, T:0.22
Consensus pattern (103 bp):
AAGAGATCCCATGTAAGACCATGTCTGGGACATGGCATTGGCATCCAGATCATGAGAGGTCCCCT
ATAAGACCATGTCTGGGACATGGCATGGGCACCATCAC
Found at i:56508593 original size:23 final size:23
Alignment explanation
Indices: 56508567--56508664 Score: 162
Period size: 23 Copynumber: 4.3 Consensus size: 23
56508557 ATAAGTGCCA
56508567 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56508590 CACTGATATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
* *
56508613 CACTG-GATGTAGCCAAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
*
56508635 CACTGAAATGTAGCCGAAGCTAC
1 CACTGATATGTAGCCGAAGCTAC
56508658 CACTGAT
1 CACTGAT
56508665 CAATAACACT
Statistics
Matches: 69, Mismatches: 5, Indels: 2
0.91 0.07 0.03
Matches are distributed among these distances:
22 20 0.29
23 49 0.71
ACGTcount: A:0.32, C:0.27, G:0.21, T:0.20
Consensus pattern (23 bp):
CACTGATATGTAGCCGAAGCTAC
Found at i:56508632 original size:45 final size:45
Alignment explanation
Indices: 56508574--56508662 Score: 160
Period size: 45 Copynumber: 2.0 Consensus size: 45
56508564 CCACACTGAT
* *
56508574 ATGTAGCCGAAGCTACCACTGATATGTAGCCGAAGCTACCACTGG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
56508619 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
1 ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTG
56508663 ATCAATAACA
Statistics
Matches: 42, Mismatches: 2, Indels: 0
0.95 0.05 0.00
Matches are distributed among these distances:
45 42 1.00
ACGTcount: A:0.31, C:0.27, G:0.22, T:0.19
Consensus pattern (45 bp):
ATGTAGCCAAAGCTACCACTGAAATGTAGCCGAAGCTACCACTGG
Done.